Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009579.1 Hibiscus syriacus cultivar Beakdansim tig00116951_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: 6215474
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 29
Found at i:772651 original size:39 final size:39
Alignment explanation
Indices: 772570--772651 Score: 114
Period size: 39 Copynumber: 2.1 Consensus size: 39
772560 GATTTTTGTT
* **
772570 TCGC-GTTGCGATTTTCATTTCGCGTTGCGATTTTTATT
1 TCGCGGTTGCGATTTTCATTTCGCGTTGCGATTTCTAGG
772608 TCGCGGTTGCGATTTTCATTTCGCGTTGCGATTGTCT-GG
1 TCGCGGTTGCGATTTTCATTTCGCGTTGCGATT-TCTAGG
772647 TCGCG
1 TCGCG
772652 ATAGTCATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
38 4 0.10
39 33 0.85
40 2 0.05
ACGTcount: A:0.09, C:0.21, G:0.27, T:0.44
Consensus pattern (39 bp):
TCGCGGTTGCGATTTTCATTTCGCGTTGCGATTTCTAGG
Found at i:772705 original size:34 final size:33
Alignment explanation
Indices: 772623--772710 Score: 131
Period size: 33 Copynumber: 2.6 Consensus size: 33
772613 GTTGCGATTT
* * *
772623 TCATTTCGCGTTGCGATTGTCTGGTCGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCAATAG
*
772656 TCATTTCGCGTTGCGATTCTCTCGTTGCAATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCAATAG
772689 TCATTTCCGCGTTGCGATTCTC
1 TCATTT-CGCGTTGCGATTCTC
772711 ATTATCTCGT
Statistics
Matches: 50, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
33 35 0.70
34 15 0.30
ACGTcount: A:0.12, C:0.25, G:0.24, T:0.39
Consensus pattern (33 bp):
TCATTTCGCGTTGCGATTCTCTCGTCGCAATAG
Found at i:772712 original size:20 final size:20
Alignment explanation
Indices: 772689--772735 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
772679 GTTGCAATAG
772689 TCATTTCCGCGTTGCGATTC
1 TCATTTCCGCGTTGCGATTC
* *
772709 TCATTAT-CTCGTTGCGATTT
1 TCATT-TCCGCGTTGCGATTC
772729 TCATTTC
1 TCATTTC
772736 AACCAAAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 1 0.04
20 21 0.91
21 1 0.04
ACGTcount: A:0.13, C:0.26, G:0.15, T:0.47
Consensus pattern (20 bp):
TCATTTCCGCGTTGCGATTC
Found at i:774619 original size:42 final size:42
Alignment explanation
Indices: 774560--774680 Score: 118
Period size: 42 Copynumber: 2.9 Consensus size: 42
774550 TAAGTCTTCG
* * *
774560 TATCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCC
1 TATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCCCC
* * * *
774602 TATCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCAC
1 TATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCCCC
* ** * *
774644 TGTCATCGTTGAAGAGGTCC-CTCCCACCATTCAAGAG
1 TATCATCCCTCAAGA-GTCCACTCCCACCGTTCAAGAG
774681 CCCGATTCAC
Statistics
Matches: 64, Mismatches: 14, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
42 60 0.94
43 4 0.06
ACGTcount: A:0.23, C:0.36, G:0.18, T:0.23
Consensus pattern (42 bp):
TATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCCCC
Found at i:774638 original size:21 final size:21
Alignment explanation
Indices: 774614--774680 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
774604 TCATTCCTCG
774614 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
774635 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
774656 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
774677 AGAG
1 AGAG
774681 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:776058 original size:14 final size:14
Alignment explanation
Indices: 776039--776075 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
776029 GATTGTTTAA
776039 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
776053 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
776067 TTGATTTGT
1 TTGATTTGT
776076 TTAATTGATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.49
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:776281 original size:33 final size:32
Alignment explanation
Indices: 776239--776364 Score: 155
Period size: 33 Copynumber: 3.8 Consensus size: 32
776229 TTAAATTCGC
776239 GTTGCGATTTTCATTTCGCATTGCGATTCCCTT
1 GTTGCGATTTTCATTTCGCATTGCGATTCCC-T
**
776272 GTTGCGATTTTCATTTCGCATTGCGAAATTAGC-
1 GTTGCGATTTTCATTTCGCATTGCG--ATTCCCT
* *
776305 GTTGCGATTTTCATTTTGCATTGCGATTCTCT
1 GTTGCGATTTTCATTTCGCATTGCGATTCCCT
* *
776337 CATTGCGATTTTCATTTTGCATTGCGAT
1 -GTTGCGATTTTCATTTCGCATTGCGAT
776365 AGTAATTTCC
Statistics
Matches: 83, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
31 4 0.05
33 75 0.90
35 4 0.05
ACGTcount: A:0.16, C:0.20, G:0.19, T:0.45
Consensus pattern (32 bp):
GTTGCGATTTTCATTTCGCATTGCGATTCCCT
Found at i:776297 original size:19 final size:19
Alignment explanation
Indices: 776234--776364 Score: 76
Period size: 19 Copynumber: 7.7 Consensus size: 19
776224 CGAAATTAAA
*
776234 TTCGCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
**
776253 TTCGCATTGCGA--TTCCC
1 TTCGCATTGCGATTTTCAT
776270 TT-G--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
*
776286 TTCGCATTGCGA-----AA
1 TTCGCATTGCGATTTTCAT
* *
776300 TTAGCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
*
776319 TTTGCATTGCGA--TTC--
1 TTCGCATTGCGATTTTCAT
*
776334 -TCTCATTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
*
776352 TTTGCATTGCGAT
1 TTCGCATTGCGAT
776365 AGTAATTTCC
Statistics
Matches: 82, Mismatches: 15, Indels: 30
0.65 0.12 0.24
Matches are distributed among these distances:
14 26 0.32
16 9 0.11
17 9 0.11
19 38 0.46
ACGTcount: A:0.15, C:0.21, G:0.19, T:0.45
Consensus pattern (19 bp):
TTCGCATTGCGATTTTCAT
Found at i:776326 original size:66 final size:66
Alignment explanation
Indices: 776231--776363 Score: 212
Period size: 66 Copynumber: 2.0 Consensus size: 66
776221 ACGCGAAATT
* **
776231 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTTGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCATTGCGATTTTCATTTCGCATTGC
776296 G
66 G
* * *
776297 AAATTAGCGTTGCGATTTTCATTTTGCATTGCGATTCTCTCATTGCGATTTTCATTTTGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCATTGCGATTTTCATTTCGCATTGC
776362 G
66 G
776363 A
1 A
776364 TAGTAATTTC
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:0.17, C:0.20, G:0.19, T:0.44
Consensus pattern (66 bp):
AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCATTGCGATTTTCATTTCGCATTGC
G
Found at i:778653 original size:12 final size:12
Alignment explanation
Indices: 778636--778660 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
778626 TCTTCGGGGA
778636 CTTTTTCTTCTT
1 CTTTTTCTTCTT
778648 CTTTTTCTTCTT
1 CTTTTTCTTCTT
778660 C
1 C
778661 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:779970 original size:20 final size:20
Alignment explanation
Indices: 779945--779982 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
779935 ATTCATTTGA
*
779945 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGAGAAAATGG
779965 CTATCGCAACGAGAAAAT
1 CTATCGCAACGAGAAAAT
779983 CGCAATGCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.24, G:0.21, T:0.16
Consensus pattern (20 bp):
CTATCGCAACGAGAAAATGG
Found at i:780025 original size:14 final size:14
Alignment explanation
Indices: 780006--780059 Score: 63
Period size: 14 Copynumber: 3.5 Consensus size: 14
779996 GAAAATCGCA
780006 TTGCGATTTTCTCG
1 TTGCGATTTTCTCG
780020 TTGCGATTTTCATTTCG
1 TTGCGATTTTC---TCG
780037 CATTGCGATTTTCTCG
1 --TTGCGATTTTCTCG
780053 TTGCGAT
1 TTGCGAT
780060 AGCCATTTCG
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
14 18 0.51
16 3 0.09
17 3 0.09
19 11 0.31
ACGTcount: A:0.11, C:0.20, G:0.20, T:0.48
Consensus pattern (14 bp):
TTGCGATTTTCTCG
Found at i:780025 original size:33 final size:33
Alignment explanation
Indices: 779988--780058 Score: 88
Period size: 33 Copynumber: 2.2 Consensus size: 33
779978 AAAATCGCAA
779988 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
1 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
** ** **
780021 TGCGATTTTCATTTCGCATTGCGATTTTCTCGT
1 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
780054 TGCGA
1 TGCGA
780059 TAGCCATTTC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.39
Consensus pattern (33 bp):
TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
Found at i:780059 original size:33 final size:33
Alignment explanation
Indices: 780001--780078 Score: 120
Period size: 33 Copynumber: 2.4 Consensus size: 33
779991 GAAATGAAAA
***
780001 TCGCATTGCGATTTTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCTCGTTGCGATAGCCATT
780034 TCGCATTGCGATTTTCTCGTTGCGATAGCCATT
1 TCGCATTGCGATTTTCTCGTTGCGATAGCCATT
*
780067 TCGCGTTGCGAT
1 TCGCATTGCGAT
780079 AGTCTGTTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.13, C:0.23, G:0.22, T:0.42
Consensus pattern (33 bp):
TCGCATTGCGATTTTCTCGTTGCGATAGCCATT
Found at i:780185 original size:14 final size:14
Alignment explanation
Indices: 780166--780202 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
780156 CATCAATTAA
780166 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
780180 ACAAATCATCTTTT
1 ACAAATCAACATTT
780194 ACAAATCAA
1 ACAAATCAA
780203 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:782106 original size:20 final size:19
Alignment explanation
Indices: 782071--782137 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
782061 GAAACTTAAA
782071 ATCGCAACGCGAAATGACT
1 ATCGCAACGCGAAATGACT
*
782090 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGC-GAAATGACT
* **
782110 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
782129 ATCGCAACG
1 ATCGCAACG
782138 ACAAAATCGC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
19 24 0.59
20 17 0.41
ACGTcount: A:0.37, C:0.24, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:782145 original size:14 final size:14
Alignment explanation
Indices: 782126--782188 Score: 74
Period size: 14 Copynumber: 4.3 Consensus size: 14
782116 ATGCGAAATG
782126 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
782140 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
782156 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
782172 AAAATCGCAACG-C
1 AAAATCGCAACGAC
782185 AAAA
1 AAAA
782189 CACAAATCGC
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
13 5 0.12
14 21 0.49
16 8 0.19
18 9 0.21
ACGTcount: A:0.51, C:0.25, G:0.16, T:0.08
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:782168 original size:32 final size:33
Alignment explanation
Indices: 782110--782184 Score: 134
Period size: 32 Copynumber: 2.3 Consensus size: 33
782100 GGAAATGGCT
*
782110 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
782143 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
782175 ATCGCAACGC
1 ATCGCAACGC
782185 AAAACACAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
32 26 0.63
33 15 0.37
ACGTcount: A:0.45, C:0.25, G:0.19, T:0.11
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:782239 original size:14 final size:14
Alignment explanation
Indices: 782220--782274 Score: 65
Period size: 14 Copynumber: 3.6 Consensus size: 14
782210 CATTTCGCGG
782220 TGCGATTTTGTCGT
1 TGCGATTTTGTCGT
*
782234 TGCGATTTCATTTCGCAT
1 TGCGATTT--TGTCG--T
782252 TGCGATTTTGTCGT
1 TGCGATTTTGTCGT
782266 TGCGATTTT
1 TGCGATTTT
782275 CATTTCGCAT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
14 18 0.51
16 8 0.23
18 9 0.26
ACGTcount: A:0.11, C:0.16, G:0.24, T:0.49
Consensus pattern (14 bp):
TGCGATTTTGTCGT
Found at i:782281 original size:33 final size:32
Alignment explanation
Indices: 782200--782290 Score: 137
Period size: 32 Copynumber: 2.8 Consensus size: 32
782190 ACAAATCGCA
**
782200 TTGCGAATTTCATTTCGCGGTGCGATTTTGTCG
1 TTGCG-ATTTCATTTCGCATTGCGATTTTGTCG
782233 TTGCGATTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTCATTTCGCATTGCGATTTTGTCG
*
782265 TTGCGATTTTCATTTCGCATTACGAT
1 TTGCGA-TTTCATTTCGCATTGCGAT
782291 AGCCATTTCC
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
32 31 0.57
33 23 0.43
ACGTcount: A:0.14, C:0.19, G:0.22, T:0.45
Consensus pattern (32 bp):
TTGCGATTTCATTTCGCATTGCGATTTTGTCG
Found at i:782297 original size:19 final size:20
Alignment explanation
Indices: 782275--782318 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
782265 TTGCGATTTT
782275 CATTT-CGCATTACGATAGC
1 CATTTCCGCATTACGATAGC
* * *
782294 CATTTCCGCGTTGCGATAGT
1 CATTTCCGCATTACGATAGC
782314 CATTT
1 CATTT
782319 TCGTGTTGCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.36
Consensus pattern (20 bp):
CATTTCCGCATTACGATAGC
Found at i:782312 original size:20 final size:20
Alignment explanation
Indices: 782287--782329 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
782277 TTTCGCATTA
782287 CGATAGCCATTTCCGCGTTG
1 CGATAGCCATTTCCGCGTTG
* * *
782307 CGATAGTCATTTTCGTGTTG
1 CGATAGCCATTTCCGCGTTG
782327 CGA
1 CGA
782330 AAGTAAACTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.16, C:0.23, G:0.26, T:0.35
Consensus pattern (20 bp):
CGATAGCCATTTCCGCGTTG
Found at i:782831 original size:18 final size:18
Alignment explanation
Indices: 782805--782849 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
782795 GTCGATCAGA
*
782805 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
782823 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
782841 TGATGGCTC
1 TGATGGCTC
782850 CCGAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:784193 original size:20 final size:20
Alignment explanation
Indices: 784168--784210 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
784158 AATAGTTTCT
784168 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
*
784188 GAAAATGAAAATCGCAACGC
1 GAAAATGAAAATCGCAACAC
784208 GAA
1 GAA
784211 TTCGACTATC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.53, C:0.19, G:0.19, T:0.09
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:784502 original size:22 final size:22
Alignment explanation
Indices: 784475--784518 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
784465 GATGGAGATA
784475 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
784497 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
784519 TGAGAGAGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.18, C:0.18, G:0.45, T:0.18
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:784716 original size:21 final size:22
Alignment explanation
Indices: 784686--784781 Score: 69
Period size: 20 Copynumber: 4.6 Consensus size: 22
784676 CGCTTTGAAA
*
784686 ATCGCATTGCGATTATGT-ATT
1 ATCGCATTGCGATTATGTAAGT
* *
784707 ATCGCGTTGCGA--AAGTAAGT
1 ATCGCATTGCGATTATGTAAGT
* * * * *
784727 ATCTCGTTGCGATT-TTTTATT
1 ATCGCATTGCGATTATGTAAGT
*
784748 ATCGCATTGCGA-TA-GTCAGT
1 ATCGCATTGCGATTATGTAAGT
784768 ATCGCATTGCGATT
1 ATCGCATTGCGATT
784782 TTCCCAATTC
Statistics
Matches: 57, Mismatches: 13, Indels: 10
0.71 0.16 0.12
Matches are distributed among these distances:
19 3 0.05
20 29 0.51
21 25 0.44
ACGTcount: A:0.23, C:0.17, G:0.22, T:0.39
Consensus pattern (22 bp):
ATCGCATTGCGATTATGTAAGT
Found at i:784749 original size:41 final size:41
Alignment explanation
Indices: 784686--784783 Score: 133
Period size: 41 Copynumber: 2.4 Consensus size: 41
784676 CGCTTTGAAA
* *
784686 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGT
* * * * *
784727 ATCTCGTTGCGATTTTTTATTATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGT
784768 ATCGCATTGCGATTTT
1 ATCGCATTGCGATTTT
784784 CCCAATTCGC
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.22, C:0.16, G:0.21, T:0.40
Consensus pattern (41 bp):
ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGT
Found at i:784798 original size:21 final size:21
Alignment explanation
Indices: 784769--784844 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
784759 ATAGTCAGTA
784769 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
784790 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
784810 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* *
784831 TCGCGTTACGATTT
1 TCGCATTGCGATTT
784845 ACTTATTCGC
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 16 0.36
21 28 0.64
ACGTcount: A:0.17, C:0.25, G:0.17, T:0.41
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCCAAT
Found at i:784799 original size:41 final size:41
Alignment explanation
Indices: 784708--784842 Score: 130
Period size: 41 Copynumber: 3.3 Consensus size: 41
784698 TTATGTATTA
* * * ** *
784708 TCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTT-TTATT
1 TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* *
784748 ATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT
1 -TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* **
784790 TCGCGTTGCGAT-TTACTTATTCGCATTGCGATTTTCCCAAT
1 TCGCGTTGCGATAGTAAGTA-TCGCATTGCGATTTTCCCAAT
*
784831 TCGCGTTACGAT
1 TCGCGTTGCGAT
784843 TTACTTATTC
Statistics
Matches: 78, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
40 3 0.04
41 73 0.94
42 2 0.03
ACGTcount: A:0.20, C:0.21, G:0.20, T:0.39
Consensus pattern (41 bp):
TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
Found at i:784813 original size:20 final size:20
Alignment explanation
Indices: 784769--784859 Score: 83
Period size: 20 Copynumber: 4.5 Consensus size: 20
784759 ATAGTCAGTA
* **
784769 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGA-TTTACTTAT
*
784790 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
* **
784810 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGA-TTTACTTAT
* *
784831 TCGCGTTACGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
784851 TCGCATTGC
1 TCGCATTGC
784860 AAATTGGGAA
Statistics
Matches: 54, Mismatches: 15, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
20 29 0.54
21 25 0.46
ACGTcount: A:0.18, C:0.25, G:0.16, T:0.41
Consensus pattern (20 bp):
TCGCATTGCGATTTACTTAT
Found at i:784843 original size:41 final size:41
Alignment explanation
Indices: 784769--784859 Score: 173
Period size: 41 Copynumber: 2.2 Consensus size: 41
784759 ATAGTCAGTA
*
784769 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTACGATTTACTTAT
784810 TCGCATTGCGATTTTCCCAATTCGCGTTACGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTACGATTTACTTAT
784851 TCGCATTGC
1 TCGCATTGC
784860 AAATTGGGAA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 49 1.00
ACGTcount: A:0.18, C:0.25, G:0.16, T:0.41
Consensus pattern (41 bp):
TCGCATTGCGATTTTCCCAATTCGCGTTACGATTTACTTAT
Found at i:787981 original size:20 final size:22
Alignment explanation
Indices: 787936--787983 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 22
787926 TCATATTTAA
*
787936 AATTACAAATTTAATAAATTAT
1 AATTACAAATTTAATAAAGTAT
*
787958 -ATTA-AAATTTAA-AAGGTAT
1 AATTACAAATTTAATAAAGTAT
787977 AATTACA
1 AATTACA
787984 CGTGCCATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
19 5 0.23
20 12 0.55
21 5 0.23
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.38
Consensus pattern (22 bp):
AATTACAAATTTAATAAAGTAT
Found at i:788642 original size:21 final size:21
Alignment explanation
Indices: 788616--788665 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
788606 ATATATATAT
* *
788616 TATTTTTTTCAAT-TAAATAA
1 TATTTTTTTAAATAAAAATAA
*
788636 CTATTTTATTAAATAAAAATAA
1 -TATTTTTTTAAATAAAAATAA
788658 TATTTTTT
1 TATTTTTT
788666 ATTATTTTAG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 18 0.75
22 6 0.25
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (21 bp):
TATTTTTTTAAATAAAAATAA
Found at i:790292 original size:2 final size:2
Alignment explanation
Indices: 790285--790321 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
790275 TCAACAAATT
790285 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
790322 TATCTAATCC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:791211 original size:21 final size:22
Alignment explanation
Indices: 791179--791219 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
791169 GTCCCTGACA
791179 CGGGGACGGTA-CGGGGACGGC
1 CGGGGACGGTACCGGGGACGGC
791200 CGGGGTAC-GTACCGGGGACG
1 CGGGG-ACGGTACCGGGGACG
791220 TGCCACGGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.15, C:0.24, G:0.54, T:0.07
Consensus pattern (22 bp):
CGGGGACGGTACCGGGGACGGC
Found at i:792027 original size:4 final size:4
Alignment explanation
Indices: 792020--792058 Score: 51
Period size: 4 Copynumber: 9.2 Consensus size: 4
792010 ATTTTTATAT
*
792020 ATAA ATAA ATATA ATCA ATAAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATA-A ATAA AT-AA ATAA ATAA ATAA ATAA A
792059 ATATTTCAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
4 25 0.81
5 6 0.19
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAA
Found at i:792041 original size:13 final size:14
Alignment explanation
Indices: 792015--792061 Score: 55
Period size: 13 Copynumber: 3.6 Consensus size: 14
792005 ATTTAATTTT
*
792015 TATATATAAATAAA
1 TATAAATAAATAAA
*
792029 TAT-AATCAATAAA
1 TATAAATAAATAAA
792042 -ATAAATAAATAAA
1 TATAAATAAATAAA
792055 TA-AAATA
1 TATAAATA
792062 TTTCAAATGT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
12 2 0.07
13 22 0.79
14 4 0.14
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (14 bp):
TATAAATAAATAAA
Found at i:792048 original size:9 final size:9
Alignment explanation
Indices: 792022--792061 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
792012 TTTTATATAT
792022 AAATAAATA
1 AAATAAATA
* *
792031 TAATCAATA
1 AAATAAATA
792040 AAATAAAT-
1 AAATAAATA
792048 AAATAAATA
1 AAATAAATA
792057 AAATA
1 AAATA
792062 TTTCAAATGT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
8 8 0.31
9 18 0.69
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (9 bp):
AAATAAATA
Found at i:798893 original size:17 final size:18
Alignment explanation
Indices: 798871--798905 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
798861 GTTGAATCCA
798871 TGTTTT-TTTTAATTTTT
1 TGTTTTGTTTTAATTTTT
*
798888 TGTTTTGTTTTGATTTTT
1 TGTTTTGTTTTAATTTTT
798906 GGGCTTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.09, C:0.00, G:0.11, T:0.80
Consensus pattern (18 bp):
TGTTTTGTTTTAATTTTT
Found at i:800554 original size:63 final size:63
Alignment explanation
Indices: 800469--800631 Score: 193
Period size: 63 Copynumber: 2.6 Consensus size: 63
800459 GATGCATCCC
* * * *
800469 TTAATGGGTGCATCGATGCACTACCTGTGCATCGGTACA-TAAATCCCATTCGATGTTTGAATA
1 TTAAGGGGTGCATCGATGCACTACATGTGCATCGATACACT-AATCACATTCGATGTTTGAATA
* * ** *
800532 TTAAGGGGTGCATCGATGCACTACTTGTGCATCGATACACTAATGACATTCGATGTTTTTATT
1 TTAAGGGGTGCATCGATGCACTACATGTGCATCGATACACTAATCACATTCGATGTTTGAATA
* * *
800595 TTAAAGGAGTGCATCGATACACTTCATGTGCATCGAT
1 TT-AAGGGGTGCATCGATGCACTACATGTGCATCGAT
800632 GCACCTTCAA
Statistics
Matches: 86, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
63 55 0.64
64 31 0.36
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (63 bp):
TTAAGGGGTGCATCGATGCACTACATGTGCATCGATACACTAATCACATTCGATGTTTGAATA
Found at i:806838 original size:40 final size:40
Alignment explanation
Indices: 806794--806890 Score: 140
Period size: 40 Copynumber: 2.4 Consensus size: 40
806784 AGTGAATATT
* *
806794 TGTCCCGAAGGACCATTACATCCCTAAGGACCACTGGATA
1 TGTCCCGAAGGACCACTACATCCCGAAGGACCACTGGATA
*
806834 TGTCCCGAAGGACCACTACGTCCCGAAGGACCACTGGATA
1 TGTCCCGAAGGACCACTACATCCCGAAGGACCACTGGATA
* * *
806874 CGTCTCGAAGAACCACT
1 TGTCCCGAAGGACCACT
806891 GGATATGTCC
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 51 1.00
ACGTcount: A:0.29, C:0.32, G:0.22, T:0.18
Consensus pattern (40 bp):
TGTCCCGAAGGACCACTACATCCCGAAGGACCACTGGATA
Found at i:806844 original size:22 final size:22
Alignment explanation
Indices: 806795--806912 Score: 126
Period size: 22 Copynumber: 5.7 Consensus size: 22
806785 GTGAATATTT
806795 GTCCCGAAGGACCA-T---TAC
1 GTCCCGAAGGACCACTGGATAC
* * *
806813 ATCCCTAAGGACCACTGGATAT
1 GTCCCGAAGGACCACTGGATAC
806835 GTCCCGAAGGACCAC----TAC
1 GTCCCGAAGGACCACTGGATAC
806853 GTCCCGAAGGACCACTGGATAC
1 GTCCCGAAGGACCACTGGATAC
* * *
806875 GTCTCGAAGAACCACTGGATAT
1 GTCCCGAAGGACCACTGGATAC
806897 GTCCCGAAGGACCACT
1 GTCCCGAAGGACCACT
806913 ATAAACCCTC
Statistics
Matches: 81, Mismatches: 11, Indels: 12
0.78 0.11 0.12
Matches are distributed among these distances:
18 29 0.36
19 1 0.01
22 51 0.63
ACGTcount: A:0.29, C:0.31, G:0.23, T:0.17
Consensus pattern (22 bp):
GTCCCGAAGGACCACTGGATAC
Found at i:806858 original size:18 final size:18
Alignment explanation
Indices: 806795--806868 Score: 76
Period size: 18 Copynumber: 3.9 Consensus size: 18
806785 GTGAATATTT
*
806795 GTCCCGAAGGACCATTAC
1 GTCCCGAAGGACCACTAC
* * *
806813 ATCCCTAAGGACCACTGGATAT
1 GTCCCGAAGGACCAC----TAC
806835 GTCCCGAAGGACCACTAC
1 GTCCCGAAGGACCACTAC
806853 GTCCCGAAGGACCACT
1 GTCCCGAAGGACCACT
806869 GGATACGTCT
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
18 30 0.67
22 15 0.33
ACGTcount: A:0.28, C:0.34, G:0.22, T:0.16
Consensus pattern (18 bp):
GTCCCGAAGGACCACTAC
Found at i:807568 original size:63 final size:63
Alignment explanation
Indices: 807455--807617 Score: 166
Period size: 63 Copynumber: 2.6 Consensus size: 63
807445 GATGCATCCC
* * * * *
807455 TTAACGGGTGCATCGATGCATTACCTGTGCATCGGTACATAAATCCCATTCGATGTTTGAATA
1 TTAAGGGGTGCATCGATGCACTACATGTGCATCGATACATAAATCACATTCGATGTTTGAATA
* * * ** *
807518 TTAAGGGGTGCATCGATGCACTACTTGTGCATCGATACACT-GATGACATTCGATGTTTTTATT
1 TTAAGGGGTGCATCGATGCACTACATGTGCATCGATACA-TAAATCACATTCGATGTTTGAATA
* * * *
807581 TTAAAGGAGTGCATCGATACAGTTCATGTGCATCGAT
1 TT-AAGGGGTGCATCGATGCACTACATGTGCATCGAT
807618 GCACCTTCAA
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
63 53 0.64
64 30 0.36
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.33
Consensus pattern (63 bp):
TTAAGGGGTGCATCGATGCACTACATGTGCATCGATACATAAATCACATTCGATGTTTGAATA
Found at i:810597 original size:21 final size:21
Alignment explanation
Indices: 810568--810607 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
810558 ACGAACCGAG
*
810568 TCGAGCTCGAATATTGCTGAGC
1 TCGAGCTCGAAAATT-CTGAGC
810590 TCGA-CTCGAAAATTCTGA
1 TCGAGCTCGAAAATTCTGA
810608 AATAGAGCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 9 0.53
22 4 0.24
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.28
Consensus pattern (21 bp):
TCGAGCTCGAAAATTCTGAGC
Found at i:810854 original size:15 final size:15
Alignment explanation
Indices: 810834--810864 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
810824 CAACAAATAG
810834 AATTTTTATATAAAT
1 AATTTTTATATAAAT
*
810849 AATTTTTATTTAAAT
1 AATTTTTATATAAAT
810864 A
1 A
810865 TTTAGAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AATTTTTATATAAAT
Found at i:811703 original size:20 final size:20
Alignment explanation
Indices: 811678--811715 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
811668 ATCCTATTCT
*
811678 CTGGTAATCTTATATTCCCA
1 CTGGTAATCTTACATTCCCA
811698 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
811716 GTGAACCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.26, G:0.11, T:0.39
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:816301 original size:3 final size:3
Alignment explanation
Indices: 816295--816364 Score: 140
Period size: 3 Copynumber: 23.3 Consensus size: 3
816285 AATATTATTC
816295 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
816343 TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT T
816365 GTTTACTTTG
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 67 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:819560 original size:22 final size:22
Alignment explanation
Indices: 819529--819587 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
819519 GTCTACGCGA
* *
819529 TCCTTTGGGACATATACAGT-GG
1 TCCTTCGGGACAAATACA-TAGG
819551 TCCTTCGGGACAAATACATAGG
1 TCCTTCGGGACAAATACATAGG
*
819573 TCATTCGGGACAAAT
1 TCCTTCGGGACAAAT
819588 TTCATATGCC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
21 1 0.03
22 32 0.97
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (22 bp):
TCCTTCGGGACAAATACATAGG
Found at i:824042 original size:43 final size:43
Alignment explanation
Indices: 823967--824060 Score: 109
Period size: 43 Copynumber: 2.2 Consensus size: 43
823957 ACGAAAAATA
* *
823967 CCGCAATAGGTAACTATAAATAGCGGCATTTGT-TCAACAAAAG
1 CCGCAATAGGTAACGATAAATAGAGGCATTTGTCT-AACAAAAG
** * * *
824010 CCGCAATAGGTAACGATATTTAGAGGCGTTTGTCTTACAAACG
1 CCGCAATAGGTAACGATAAATAGAGGCATTTGTCTAACAAAAG
824053 CCGCAATA
1 CCGCAATA
824061 TGTTTTGATA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
43 42 0.98
44 1 0.02
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.24
Consensus pattern (43 bp):
CCGCAATAGGTAACGATAAATAGAGGCATTTGTCTAACAAAAG
Found at i:824117 original size:43 final size:42
Alignment explanation
Indices: 824056--824170 Score: 104
Period size: 43 Copynumber: 2.7 Consensus size: 42
824046 ACAAACGCCG
* * * * *
824056 CAATATGTTTTGATATTTAACGGCGTTTTTGGCATAAACACC
1 CAATAAGTGTTGAGATTTAACAGCGTTTTTAGCATAAACACC
* * * * **
824098 ACAATAGGTGTTTAGATTTAGCAGCGTTTTTATCATAAATGCC
1 -CAATAAGTGTTGAGATTTAACAGCGTTTTTAGCATAAACACC
* *
824141 CAATAAGTGTTGAGATTTAGCAGTGTTTTT
1 CAATAAGTGTTGAGATTTAACAGCGTTTTT
824171 CTGGAAAACG
Statistics
Matches: 59, Mismatches: 13, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
42 27 0.46
43 32 0.54
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.39
Consensus pattern (42 bp):
CAATAAGTGTTGAGATTTAACAGCGTTTTTAGCATAAACACC
Found at i:824307 original size:44 final size:44
Alignment explanation
Indices: 824216--824319 Score: 136
Period size: 44 Copynumber: 2.4 Consensus size: 44
824206 GCGTTTTTTA
** * * *
824216 TACAAACGCAACTAAAGGTATGGTATATAGCGACGTTTTTGGGT
1 TACAAACGCCGCTAAAGGTATGGTATATAGCAACATTTTTAGGT
* **
824260 TACAAACGCCGCTAAAGGTCTGGTATATAGCAACATTTTTATTT
1 TACAAACGCCGCTAAAGGTATGGTATATAGCAACATTTTTAGGT
824304 TACAAACGCCGCTAAA
1 TACAAACGCCGCTAAA
824320 TAACACATAA
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 52 1.00
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (44 bp):
TACAAACGCCGCTAAAGGTATGGTATATAGCAACATTTTTAGGT
Found at i:824694 original size:33 final size:34
Alignment explanation
Indices: 824657--824730 Score: 89
Period size: 33 Copynumber: 2.2 Consensus size: 34
824647 CTGTGCTGTC
* *
824657 GCTGCTTCTTTT-TGTGCTTCCGCTACTGCTCTG
1 GCTGCTTCTTTTCTCTGCTTCCACTACTGCTCTG
* **
824690 GCTGCTT-TTTTCTCTGCTTCTACTGTTGCTCTG
1 GCTGCTTCTTTTCTCTGCTTCCACTACTGCTCTG
824723 GCTGCTTC
1 GCTGCTTC
824731 CGCTGCTGCT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
32 4 0.12
33 30 0.88
ACGTcount: A:0.03, C:0.30, G:0.20, T:0.47
Consensus pattern (34 bp):
GCTGCTTCTTTTCTCTGCTTCCACTACTGCTCTG
Found at i:825920 original size:16 final size:16
Alignment explanation
Indices: 825899--825931 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
825889 TGCTTCTGGG
825899 CCAATAGGTTGACCGA
1 CCAATAGGTTGACCGA
825915 CCAATAGGTTGACCGA
1 CCAATAGGTTGACCGA
825931 C
1 C
825932 ATCGTTTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.27, G:0.24, T:0.18
Consensus pattern (16 bp):
CCAATAGGTTGACCGA
Found at i:835320 original size:22 final size:21
Alignment explanation
Indices: 835293--835341 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
835283 AAAAATGTTG
* *
835293 AAAAAAAATAGCAGTTCGAAA
1 AAAAAAAAAAACAGTTCGAAA
*
835314 AAGAAAAAAAAACTGTTCGAAA
1 AA-AAAAAAAAACAGTTCGAAA
835336 AAAAAA
1 AAAAAA
835342 GACATGAAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 6 0.25
22 18 0.75
ACGTcount: A:0.67, C:0.08, G:0.12, T:0.12
Consensus pattern (21 bp):
AAAAAAAAAAACAGTTCGAAA
Found at i:841643 original size:22 final size:23
Alignment explanation
Indices: 841612--841659 Score: 73
Period size: 22 Copynumber: 2.1 Consensus size: 23
841602 TCAAGTTTTC
841612 AAAAGCTATTA-TTTTCCTATTCG
1 AAAAGCTATTACTTTT-CTATTCG
841635 AAAA-CTATTACTTTTCTATTCG
1 AAAAGCTATTACTTTTCTATTCG
841657 AAA
1 AAA
841660 GCAGAAAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
22 16 0.67
23 8 0.33
ACGTcount: A:0.35, C:0.17, G:0.06, T:0.42
Consensus pattern (23 bp):
AAAAGCTATTACTTTTCTATTCG
Found at i:844269 original size:264 final size:253
Alignment explanation
Indices: 843864--844344 Score: 710
Period size: 264 Copynumber: 1.9 Consensus size: 253
843854 GGTTGGATCG
* *
843864 GGTTTTTTTAAGTGTGCTATTCGGGTCGGGTCGGGTTTAGAGTGAAAAAAACCGGACCGGCCCGA
1 GGTTTTTTTAAGTGTGATATTCGGGTCGGGTCGGGTTTAGAGTGAAAAAAACCGGACCGACCCGA
* *
843929 AAATATATATAATTCAGGTCAGGTCGGATTAAGTCACTATTTTTATTAAATAAAAATATTTTTTT
66 AAATATATATAATTCAGGTCAGGTCGGATTAAATCACTATTTTTATTAAATAAAAATAATTTTTT
* * * *
843994 ATTATTTCGGGTCGGATTGGGTTGGATTTCTAATTCATATATTCGGGTCAGGTCGGATGAAACTT
131 ATTATTTCGGGTCGGATCGGGTCGAATTTCTAATTCATATATTCGGGTCAGGTCAGATGAAACTT
*
844059 TATTTTGTTCGGGTTGGGTCGGGTTTTTTAAGTGTGATATTCGGGTTGAGTCGGGTTA
196 TATTTTGTTCGGGTCGGGTCGGGTTTTTTAAGTGTGATATTCGGGTTGAGTCGGGTTA
* *
844117 GGTTTTTTTAAGTGTGATATTTGGGTCAGGTCAAGTTCGGGTTTAGGGTGAAAAAAACCGGACCG
1 GGTTTTTTTAAGTGTGATATTCGGGTC-GG----G-TCGGGTTTAGAGTGAAAAAAACCGGACCG
* * *
844182 ACCCGAAAATATATATAATTCGGGTTGGGTCGGGTCGGATTAAATCACTGTTTTTATTAAATAAA
60 ACCCGAAAATATATATAATTC-----AGGTCAGGTCGGATTAAATCACTATTTTTATTAAATAAA
* **
844247 AATAATTTTTTATTATTTCGGGTCGGGTCGGGTCGAATTTCTAATTCATATATTCGGGTTGGGTC
120 AATAATTTTTTATTATTTCGGGTCGGATCGGGTCGAATTTCTAATTCATATATTCGGGTCAGGTC
844312 AGATGAAACTTTATTTTGTTCGGGTCGGGTCGG
185 AGATGAAACTTTATTTTGTTCGGGTCGGGTCGG
844345 TTTCGGGTTT
Statistics
Matches: 200, Mismatches: 17, Indels: 11
0.88 0.07 0.05
Matches are distributed among these distances:
253 25 0.12
254 2 0.01
258 1 0.00
259 48 0.24
264 124 0.62
ACGTcount: A:0.24, C:0.11, G:0.27, T:0.37
Consensus pattern (253 bp):
GGTTTTTTTAAGTGTGATATTCGGGTCGGGTCGGGTTTAGAGTGAAAAAAACCGGACCGACCCGA
AAATATATATAATTCAGGTCAGGTCGGATTAAATCACTATTTTTATTAAATAAAAATAATTTTTT
ATTATTTCGGGTCGGATCGGGTCGAATTTCTAATTCATATATTCGGGTCAGGTCAGATGAAACTT
TATTTTGTTCGGGTCGGGTCGGGTTTTTTAAGTGTGATATTCGGGTTGAGTCGGGTTA
Found at i:844519 original size:183 final size:187
Alignment explanation
Indices: 844152--844524 Score: 574
Period size: 183 Copynumber: 2.0 Consensus size: 187
844142 TCAGGTCAAG
844152 TTCGGGTTTAGGGTGAAAAAAACCGGACCGACCCGAAAATATATATAATTCGGGTTGGGTCGGGT
1 TTCGGGTTTAGGGTGAAAAAAACCGGACCGACCCGAAAATATATATAATTC--G--GGGTCGGGT
** *
844217 CGGATTAAATCACTGTTTTTATTAAATAAAAATAATTTTTTATTATTTCGGGTCGGGTCGGGTCG
62 AAGATTAAATCACTGTTTTTATTAAATAAAAATAATTTTTTATTATTTCAGGT---GTCGGGTCG
*
844282 AATTTCTAATTCATATATTCGGGTTGGGTCAGATGAAACTTTATTTTGTTCGGGTCGGGTCGGT
124 AATTTCTAATTCATATATTCGGGTCGGGTCAGATGAAACTTTATTTTGTTCGGGTCGGGTCGGT
*
844346 TTCGGGTTTAGGGTG-AAAAAACTGGACCGACCCGAAAATATATATAATTC-GGGTCGGGTAAGA
1 TTCGGGTTTAGGGTGAAAAAAACCGGACCGACCCGAAAATATATATAATTCGGGGTCGGGTAAGA
* * *
844409 TTAAGTCACTGTTTTTATTAAATAAAAATATTTTTTTATTATTTCAGGT-T-GGGTCGGATTTCT
66 TTAAATCACTGTTTTTATTAAATAAAAATAATTTTTTATTATTTCAGGTGTCGGGTCGAATTTCT
*
844472 AATTCATATATTCGGGTCGGGTCGGATGAAACTTTATTTTGTTCGGGTCGGGT
131 AATTCATATATTCGGGTCGGGTCAGATGAAACTTTATTTTGTTCGGGTCGGGT
844525 TTTTTAAGTG
Statistics
Matches: 170, Mismatches: 9, Indels: 11
0.89 0.05 0.06
Matches are distributed among these distances:
183 63 0.37
184 1 0.01
188 57 0.34
193 34 0.20
194 15 0.09
ACGTcount: A:0.26, C:0.12, G:0.25, T:0.36
Consensus pattern (187 bp):
TTCGGGTTTAGGGTGAAAAAAACCGGACCGACCCGAAAATATATATAATTCGGGGTCGGGTAAGA
TTAAATCACTGTTTTTATTAAATAAAAATAATTTTTTATTATTTCAGGTGTCGGGTCGAATTTCT
AATTCATATATTCGGGTCGGGTCAGATGAAACTTTATTTTGTTCGGGTCGGGTCGGT
Found at i:844575 original size:38 final size:37
Alignment explanation
Indices: 844514--844600 Score: 131
Period size: 38 Copynumber: 2.3 Consensus size: 37
844504 TTTATTTTGT
*
844514 TCGGGTCGGGTTTTTTAAGTGTGATATTCGGGTC-GAG
1 TCGGGTCGGGTTTTTTAAGTGTGATATTCGGCTCAG-G
*
844551 TCGGGTCGGATTTTTTTAAGTGTGATATTCGGCTCAGG
1 TCGGGTCGG-GTTTTTTAAGTGTGATATTCGGCTCAGG
844589 TCGGGTCGGGTT
1 TCGGGTCGGGTT
844601 CGGGTTTAGG
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
37 11 0.24
38 33 0.73
39 1 0.02
ACGTcount: A:0.13, C:0.13, G:0.37, T:0.38
Consensus pattern (37 bp):
TCGGGTCGGGTTTTTTAAGTGTGATATTCGGCTCAGG
Found at i:845573 original size:28 final size:28
Alignment explanation
Indices: 845541--845618 Score: 93
Period size: 33 Copynumber: 2.6 Consensus size: 28
845531 AAAATTCGGG
*
845541 TTCAGGTCGGGTTTTTTTAAGTTTGATA
1 TTCAGGTCGGGTTTTTTTAAGTGTGATA
*
845569 TTCAGGTCAGGTCAGGTTTGTTTAAGTGTGATA
1 TTCAGGTC--G---GGTTTTTTTAAGTGTGATA
845602 TTCAGGTCGGGTTTTTT
1 TTCAGGTCGGGTTTTTT
845619 ATAAAAATTT
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
28 15 0.36
30 1 0.02
31 1 0.02
33 25 0.60
ACGTcount: A:0.17, C:0.09, G:0.28, T:0.46
Consensus pattern (28 bp):
TTCAGGTCGGGTTTTTTTAAGTGTGATA
Found at i:845579 original size:33 final size:33
Alignment explanation
Indices: 845542--845609 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 33
845532 AAATTCGGGT
* * *
845542 TCAGGTCGGGTTTTTTTAAGTTTGATATTCAGG
1 TCAGGTCAGGTTTGTTTAAGTGTGATATTCAGG
845575 TCAGGTCAGGTTTGTTTAAGTGTGATATTCAGG
1 TCAGGTCAGGTTTGTTTAAGTGTGATATTCAGG
845608 TC
1 TC
845610 GGGTTTTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (33 bp):
TCAGGTCAGGTTTGTTTAAGTGTGATATTCAGG
Found at i:846297 original size:18 final size:18
Alignment explanation
Indices: 846274--846323 Score: 91
Period size: 18 Copynumber: 2.8 Consensus size: 18
846264 CAATTCCTGG
*
846274 CAGATTCCAATTCCTTCA
1 CAGATTCTAATTCCTTCA
846292 CAGATTCTAATTCCTTCA
1 CAGATTCTAATTCCTTCA
846310 CAGATTCTAATTCC
1 CAGATTCTAATTCC
846324 CTCATAAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.28, C:0.30, G:0.06, T:0.36
Consensus pattern (18 bp):
CAGATTCTAATTCCTTCA
Found at i:850036 original size:32 final size:32
Alignment explanation
Indices: 850000--850066 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 32
849990 AATATAATTT
* * * *
850000 TAAGAT-GATGATGTGATATGTATCATTTGATC
1 TAAGATCG-TGATGTAACATGTATCATATCATC
850032 TAAGATCGTGATGTAACATGTATCATATCATC
1 TAAGATCGTGATGTAACATGTATCATATCATC
850064 TAA
1 TAA
850067 TGTGATAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
32 29 0.97
33 1 0.03
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.37
Consensus pattern (32 bp):
TAAGATCGTGATGTAACATGTATCATATCATC
Found at i:850105 original size:23 final size:23
Alignment explanation
Indices: 850058--850105 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
850048 CATGTATCAT
* *
850058 ATCATCTAATGTGATAAAATGAC
1 ATCATCTAATGTAATAAAATAAC
*
850081 ATCATCTAATGTAATAACATAAC
1 ATCATCTAATGTAATAAAATAAC
850104 AT
1 AT
850106 ATGATATGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (23 bp):
ATCATCTAATGTAATAAAATAAC
Found at i:850707 original size:103 final size:104
Alignment explanation
Indices: 850520--850721 Score: 352
Period size: 103 Copynumber: 2.0 Consensus size: 104
850510 AATTAAACTA
*
850520 AATTTTAATTCATTTAATTTTTATAATTTAATCATTTTATAAAAATTAAATTGATTTTAAATTAC
1 AATTTTAATTCATTTAATTTTTATAATTTAATCATTTTATAAAAATTAAATTGATTTGAAATTAC
*
850585 ATAATTTAACTTCCGTAGTCTAATGTTAACTAGTAATTC
66 ATAATTTAACTCCCGTAGTCTAATGTTAACTAGTAATTC
* *
850624 AATTTTAATTCGTTTAATTTTTATAATTTAATTATTTTAT-AAAATTAAATTGATTTGAAATTAC
1 AATTTTAATTCATTTAATTTTTATAATTTAATCATTTTATAAAAATTAAATTGATTTGAAATTAC
*
850688 ATAATTTAACTCCCGTAGTCTAATGTTAAGTAGT
66 ATAATTTAACTCCCGTAGTCTAATGTTAACTAGT
850722 CCGTGTTTAT
Statistics
Matches: 93, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
103 55 0.59
104 38 0.41
ACGTcount: A:0.38, C:0.08, G:0.06, T:0.48
Consensus pattern (104 bp):
AATTTTAATTCATTTAATTTTTATAATTTAATCATTTTATAAAAATTAAATTGATTTGAAATTAC
ATAATTTAACTCCCGTAGTCTAATGTTAACTAGTAATTC
Found at i:853239 original size:12 final size:12
Alignment explanation
Indices: 853205--853239 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
853195 ATTATAACTT
853205 AAATAATTATAA
1 AAATAATTATAA
*
853217 AACTAAATTATAA
1 AAAT-AATTATAA
853230 AAATAATTAT
1 AAATAATTAT
853240 TTTCTAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (12 bp):
AAATAATTATAA
Found at i:856650 original size:21 final size:21
Alignment explanation
Indices: 856533--856670 Score: 77
Period size: 21 Copynumber: 6.7 Consensus size: 21
856523 ACGCGAAATA
**
856533 AAAATCGCAACGCGA-TCCCC
1 AAAATCGCAACGCGATTTTCC
* ** *
856553 AGAATCGCAAATC-AGTTTCC
1 AAAATCGCAACGCGATTTTCC
*
856573 AAAATCGCAACGCGATTCTT-G
1 AAAATCGCAACGCGATT-TTCC
* * ** *
856594 GAAATCGCAATGCGATAGTAC
1 AAAATCGCAACGCGATTTTCC
* **
856615 AAATTCGCATTGCGATTTTCC
1 AAAATCGCAACGCGATTTTCC
* * *
856636 AAAATCGCAACGCGAATAT-G
1 AAAATCGCAACGCGATTTTCC
856656 AAAATCGCAACGCGA
1 AAAATCGCAACGCGA
856671 ACACATAAAT
Statistics
Matches: 87, Mismatches: 27, Indels: 8
0.71 0.22 0.07
Matches are distributed among these distances:
19 1 0.01
20 39 0.45
21 45 0.52
22 2 0.02
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.20
Consensus pattern (21 bp):
AAAATCGCAACGCGATTTTCC
Found at i:856699 original size:20 final size:20
Alignment explanation
Indices: 856637--856830 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
856627 CGATTTTCCA
* ** *
856637 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
856657 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
856677 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
856697 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
856717 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
856737 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
856757 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
856777 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
856797 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
856818 AAATCGCAACGCG
1 AAATCGCAACGCG
856831 ATATTTAAAG
Statistics
Matches: 146, Mismatches: 23, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 126 0.86
21 17 0.12
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:856721 original size:60 final size:60
Alignment explanation
Indices: 856637--856830 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
856627 CGATTTTCCA
* ** * *
856637 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* * *** *
856697 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* **
856757 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGT
856818 AAATCGCAACGCG
1 AAATCGCAACGCG
856831 ATATTTAAAG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 81 0.72
61 31 0.28
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
Found at i:857252 original size:33 final size:33
Alignment explanation
Indices: 857213--857283 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
857203 TTCACTTAGA
*
857213 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
857246 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
857279 TTTCA
1 TTTCA
857284 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:857407 original size:20 final size:20
Alignment explanation
Indices: 857363--857472 Score: 108
Period size: 21 Copynumber: 5.8 Consensus size: 20
857353 TGCAGAAGAG
*
857363 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-GAATGAAAA
***
857384 TCGCAACGAGAGAATGACTG
1 TCGCAACGAGAGAATGAAAA
857404 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGAG-AATGAAAA
857425 TCGCAAC--GAG-A-G--AA
1 TCGCAACGAGAGAATGAAAA
*
857439 TCGCAACGCGA-AATGAAAA
1 TCGCAACGAGAGAATGAAAA
857458 TCGCAACGAGAGAAT
1 TCGCAACGAGAGAAT
857473 CGCAACGCGA
Statistics
Matches: 73, Mismatches: 8, Indels: 17
0.74 0.08 0.17
Matches are distributed among these distances:
14 9 0.12
16 4 0.05
17 2 0.03
19 15 0.21
20 20 0.27
21 23 0.32
ACGTcount: A:0.45, C:0.18, G:0.25, T:0.12
Consensus pattern (20 bp):
TCGCAACGAGAGAATGAAAA
Found at i:857420 original size:41 final size:38
Alignment explanation
Indices: 857356--857472 Score: 145
Period size: 41 Copynumber: 3.1 Consensus size: 38
857346 TTCAATTTGC
* *
857356 AGAAGAGTCGCAACGAGATAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
857394 AGAATGACTGTCGCAACGAGAGAAATGAAAATCGCAACGAG
1 AGAAT-A--GTCGCAACGAGAGAAATGAAAATCGCAACGAG
*
857435 AG-A-A-TCGCAAC--GCGAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
857468 AGAAT
1 AGAAT
857473 CGCAACGCGA
Statistics
Matches: 71, Mismatches: 3, Indels: 13
0.82 0.03 0.15
Matches are distributed among these distances:
33 23 0.32
34 1 0.01
35 7 0.10
38 5 0.07
39 1 0.01
40 1 0.01
41 33 0.46
ACGTcount: A:0.46, C:0.17, G:0.26, T:0.11
Consensus pattern (38 bp):
AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
Found at i:857442 original size:14 final size:14
Alignment explanation
Indices: 857423--857479 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
857413 GAGAAATGAA
857423 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
857437 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
857456 AATCGCAACGAGAG
1 AATCGCAACGAGAG
857470 AATCGCAACG
1 AATCGCAACG
857480 CGAAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:857455 original size:33 final size:33
Alignment explanation
Indices: 857415--857495 Score: 144
Period size: 33 Copynumber: 2.5 Consensus size: 33
857405 CGCAACGAGA
857415 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
857448 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
**
857481 GAAACCAAAATCGCA
1 GAAATGAAAATCGCA
857496 TTGCGATTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.47, C:0.22, G:0.22, T:0.09
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:857547 original size:21 final size:21
Alignment explanation
Indices: 857521--857585 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
857511 CGCGTTGCGA
857521 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
857542 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
857562 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
857583 TTC
1 TTC
857586 AACCAAAAGA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 17 0.46
21 20 0.54
ACGTcount: A:0.11, C:0.26, G:0.15, T:0.48
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:857582 original size:20 final size:20
Alignment explanation
Indices: 857520--857583 Score: 92
Period size: 20 Copynumber: 3.1 Consensus size: 20
857510 TCGCGTTGCG
857520 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
***
857540 ATTTCTCTCGTTGCGACAGTC
1 A-TTCTCTCGTTGCGATTTTC
857561 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
857581 ATT
1 ATT
857584 TCAACCAAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 20 0.54
21 17 0.46
ACGTcount: A:0.12, C:0.25, G:0.16, T:0.47
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:859442 original size:93 final size:93
Alignment explanation
Indices: 859283--859751 Score: 904
Period size: 93 Copynumber: 5.1 Consensus size: 93
859273 TAGATTGCTT
* *
859283 AGTAAATTTATTCGGTTACTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
859348 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
859376 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
859441 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
859469 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
859534 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
859562 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
859627 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
859655 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTATATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
859720 TTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
859747 AGTAA
1 AGTAA
859752 TGCAATCCAT
Statistics
Matches: 373, Mismatches: 3, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
92 6 0.02
93 367 0.98
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:859839 original size:19 final size:19
Alignment explanation
Indices: 859799--859927 Score: 116
Period size: 19 Copynumber: 7.3 Consensus size: 19
859789 TAGTTTACTT
* *
859799 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
859819 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
859838 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
859857 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
859871 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
859890 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
*
859904 TAGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
859923 TCGCA
1 TCGCA
859928 TTGCGATTTT
Statistics
Matches: 88, Mismatches: 11, Indels: 21
0.73 0.09 0.17
Matches are distributed among these distances:
14 18 0.20
15 2 0.02
16 4 0.05
17 4 0.05
18 2 0.02
19 45 0.51
20 13 0.15
ACGTcount: A:0.47, C:0.28, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:859878 original size:33 final size:32
Alignment explanation
Indices: 859835--859927 Score: 141
Period size: 33 Copynumber: 2.8 Consensus size: 32
859825 CGCGAAACCA
**
859835 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
859867 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
*
859900 AAGATAGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
859928 TTGCGATTTT
Statistics
Matches: 56, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
32 2 0.04
33 54 0.96
ACGTcount: A:0.47, C:0.27, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:859925 original size:52 final size:51
Alignment explanation
Indices: 859801--859927 Score: 134
Period size: 52 Copynumber: 2.5 Consensus size: 51
859791 GTTTACTTTC
**
859801 GCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAAT
1 GCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAAT
* * *
859852 G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGAT
1 GCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-AT
*
859905 AGCAACGCGAAAC-CAAAATCGCA
1 -GCAACACGAAACACAAAATCGCA
859928 TTGCGATTTT
Statistics
Matches: 61, Mismatches: 9, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 41 0.67
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.47, C:0.28, G:0.17, T:0.08
Consensus pattern (51 bp):
GCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAAT
Found at i:859964 original size:14 final size:14
Alignment explanation
Indices: 859945--860001 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
859935 TTTCATTTCG
859945 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
859959 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
859976 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
859992 CGTTGCGATT
1 CGTTGCGATT
860002 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:859970 original size:33 final size:33
Alignment explanation
Indices: 859928--860020 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
859918 CAAAATCGCA
*
859928 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
859961 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
859994 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
860021 TTGGTTTCGT
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:860028 original size:19 final size:19
Alignment explanation
Indices: 859923--860037 Score: 106
Period size: 19 Copynumber: 6.6 Consensus size: 19
859913 GAAACCAAAA
*
859923 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
859942 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
859958 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
859975 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
859991 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
860008 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
860027 TCGTGTTGCGA
1 TCGCGTTGCGA
860038 AAGTAAACTA
Statistics
Matches: 78, Mismatches: 8, Indels: 20
0.74 0.08 0.19
Matches are distributed among these distances:
14 15 0.19
16 11 0.14
17 11 0.14
19 41 0.53
ACGTcount: A:0.10, C:0.20, G:0.23, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:861985 original size:14 final size:14
Alignment explanation
Indices: 861966--862001 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
861956 ATTGTTTAAT
861966 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
861980 TGATTTGTATAAGT
1 TGATTTGTAAAAGA
861994 TGATTTGT
1 TGATTTGT
862002 GTAATTGATG
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:862124 original size:19 final size:19
Alignment explanation
Indices: 862108--862205 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
862098 AAAAATGACT
862108 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
862127 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
862146 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
862160 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
862179 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
862199 ATCGCAA
1 ATCGCAA
862206 CGAGAGAATC
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 39 0.55
20 16 0.23
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:862237 original size:53 final size:53
Alignment explanation
Indices: 862108--862223 Score: 225
Period size: 53 Copynumber: 2.2 Consensus size: 53
862098 AAAAATGACT
862108 ATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
862160 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
862213 ATCGCAATGCG
1 ATCGCAATGCG
862224 TTTATAATTT
Statistics
Matches: 63, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 29 0.46
53 34 0.54
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.14
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:862346 original size:34 final size:33
Alignment explanation
Indices: 862271--862378 Score: 146
Period size: 33 Copynumber: 3.2 Consensus size: 33
862261 TCATTTCGCA
*
862271 TTGCAATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
** *
862304 TTGCGATTTTCATTTCCGTGTTGCGATTTTCAT-G
1 TTGCGATTTTCATTT-CGCATTGCGATTCTC-TCG
*
862338 TTGGGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
862371 TTGCGATT
1 TTGCGATT
862379 GTAATTTCCG
Statistics
Matches: 63, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
32 1 0.02
33 34 0.54
34 27 0.43
35 1 0.02
ACGTcount: A:0.13, C:0.20, G:0.19, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:862364 original size:19 final size:19
Alignment explanation
Indices: 862252--862364 Score: 102
Period size: 19 Copynumber: 6.4 Consensus size: 19
862242 GATTCTCTCG
862252 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
862271 TTGCAATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
862290 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
**
862304 TTGCGATTTTCATTTCCGTG
1 TTGCGATTTTCATTT-CGCA
862324 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
*
862338 TTGGGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
862357 TTGCGATT
1 TTGCGATT
862365 CTCTCGTTGC
Statistics
Matches: 77, Mismatches: 6, Indels: 22
0.73 0.06 0.21
Matches are distributed among these distances:
14 17 0.22
16 9 0.12
17 6 0.08
18 3 0.04
19 30 0.39
20 12 0.16
ACGTcount: A:0.14, C:0.19, G:0.19, T:0.48
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:864679 original size:12 final size:12
Alignment explanation
Indices: 864662--864686 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
864652 TCTTCGGGGA
864662 CTTTTTCTTCTT
1 CTTTTTCTTCTT
864674 CTTTTTCTTCTT
1 CTTTTTCTTCTT
864686 C
1 C
864687 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:864895 original size:24 final size:24
Alignment explanation
Indices: 864861--864907 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
864851 CTGAAACATC
864861 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
864885 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
864908 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:865618 original size:20 final size:20
Alignment explanation
Indices: 865590--865799 Score: 206
Period size: 20 Copynumber: 10.5 Consensus size: 20
865580 AAATTTCAGT
* * *
865590 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
865610 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
865630 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
* **
865650 GTTGTGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
*
865670 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
865690 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* ** *
865710 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATTCGC
*
865730 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
865750 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
865770 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
865790 GTTGCGATTT
1 GTTGCGATTT
865800 TGGAAAATCG
Statistics
Matches: 162, Mismatches: 26, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
20 161 0.99
21 1 0.01
ACGTcount: A:0.19, C:0.18, G:0.25, T:0.38
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:865816 original size:21 final size:21
Alignment explanation
Indices: 865786--865868 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
865776 ATTTTCATAT
*
865786 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
865807 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
865828 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
865849 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
865869 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:865859 original size:42 final size:43
Alignment explanation
Indices: 865766--865864 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
865756 ATTTATGTGT
* *
865766 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
865807 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
865849 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
865865 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:868819 original size:174 final size:174
Alignment explanation
Indices: 868529--868873 Score: 494
Period size: 174 Copynumber: 2.0 Consensus size: 174
868519 AAGGCTTTTT
* * * *
868529 CTAATTTGATTATTAATAAAACGAGTCCTTCTGGGATTGAGTCTGGTGGAAAGGATGTTGATATT
1 CTAATTTGATTATTAATAAAACAAGTCCTTCTGGGATTGAGTCCGGCGAAAAGGATGTTGATATT
* * * * * *
868594 GGTACAGGAGATGAAAAGCGTGTAGAAGATGCTGATTTTTTGGCATTATTGGGTGCTGATGAGGG
66 GGTACAGAAGATCAAAAGCGTGTAGAAGATGCTGATATTTCGGCATTATTGGATGCTAATGAGGG
* * *
868659 TAATGTGGC-AGCTAATGAGAGCAGTTCACTGGTATCTAGTAATG
131 TAATGTGGCTA-CTAATAAGAGCAGTTCACTGATACCTAGTAATG
** * *
868703 CTAATTTGATTATTTGTGAAACAAGTCCTTCTGGGGTTGAGTCCGGCGAAAAGGATGTTGATATT
1 CTAATTTGATTATTAATAAAACAAGTCCTTCTGGGATTGAGTCCGGCGAAAAGGATGTTGATATT
* * *
868768 GGTACAGAAGCTCAAAAGGGTGTAGAAGATGCTGATATTTCGGCATTATTGGATGCTAATGTGGG
66 GGTACAGAAGATCAAAAGCGTGTAGAAGATGCTGATATTTCGGCATTATTGGATGCTAATGAGGG
868833 TAATGTGGCTACTAATAAGAGCAGTTCACTGATACCTAGTA
131 TAATGTGGCTACTAATAAGAGCAGTTCACTGATACCTAGTA
868874 CTGCGAAGGA
Statistics
Matches: 150, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
174 149 0.99
175 1 0.01
ACGTcount: A:0.29, C:0.11, G:0.28, T:0.32
Consensus pattern (174 bp):
CTAATTTGATTATTAATAAAACAAGTCCTTCTGGGATTGAGTCCGGCGAAAAGGATGTTGATATT
GGTACAGAAGATCAAAAGCGTGTAGAAGATGCTGATATTTCGGCATTATTGGATGCTAATGAGGG
TAATGTGGCTACTAATAAGAGCAGTTCACTGATACCTAGTAATG
Found at i:872675 original size:14 final size:14
Alignment explanation
Indices: 872656--872682 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
872646 AGCCTTTCTT
872656 TCTTTATAGAATTA
1 TCTTTATAGAATTA
872670 TCTTTATAGAATT
1 TCTTTATAGAATT
872683 GAGACTAGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.52
Consensus pattern (14 bp):
TCTTTATAGAATTA
Found at i:876081 original size:19 final size:20
Alignment explanation
Indices: 876059--876106 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
876049 ATGTTCATTT
876059 TACATAACTTAG-AAAAAAA
1 TACATAACTTAGAAAAAAAA
876078 TACATAACTTAGAAAAAAAA
1 TACATAACTTAGAAAAAAAA
876098 TACATAACT
1 TACATAACT
876107 ACAAATATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 12 0.43
20 16 0.57
ACGTcount: A:0.60, C:0.12, G:0.04, T:0.23
Consensus pattern (20 bp):
TACATAACTTAGAAAAAAAA
Found at i:876219 original size:2 final size:2
Alignment explanation
Indices: 876212--876258 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
876202 ATTATTAATG
876212 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
876254 TT AT A
1 AT AT A
876259 ATCCAGTTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:877238 original size:31 final size:31
Alignment explanation
Indices: 877202--877260 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
877192 AACTTAAAAG
* *
877202 AGTTTTGCAATACTGAGATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
* *
877233 AGTTTTATAATATTGAAATTTAAATAAT
1 AGTTTTACAATACTGAAATTTAAATAAT
877261 CCATATAACT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.41, C:0.03, G:0.10, T:0.46
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:877311 original size:22 final size:22
Alignment explanation
Indices: 877285--877327 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
877275 TAATAAATTA
877285 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
877307 TTTAAAATAAATCAATTCATA
1 TTTAAAATAAATCAATCCATA
877328 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:877333 original size:18 final size:18
Alignment explanation
Indices: 877311--877362 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
877301 CCATATTTTA
877311 AAATAAATCAATTCATAC
1 AAATAAATCAATTCATAC
* *
877329 TAATAAAT-TATT--TA-
1 AAATAAATCAATTCATAC
877343 AAATAAATCAATTCATAC
1 AAATAAATCAATTCATAC
877361 AA
1 AA
877363 CTACAATAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 8
0.68 0.11 0.21
Matches are distributed among these distances:
14 7 0.27
15 5 0.19
17 5 0.19
18 9 0.35
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.33
Consensus pattern (18 bp):
AAATAAATCAATTCATAC
Found at i:877336 original size:22 final size:22
Alignment explanation
Indices: 877287--877335 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
877277 ATAAATTATT
**
877287 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
*
877309 TAAAATAAATCAATTCATACTAA
1 TAAAATAAATCAATCCATA-TAA
877332 TAAA
1 TAAA
877336 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:877339 original size:54 final size:54
Alignment explanation
Indices: 877275--877578 Score: 232
Period size: 54 Copynumber: 5.6 Consensus size: 54
877265 ATAACTACAA
877275 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCATAC
* * **
877329 TAATAAATTATTTAAAATAAATCAATTCATACAACTACAATAATAAATCAA-TCATA-
1 TAATAAATTATTTAAAATAAATCAATCCAT---ATTTTAA-AATAAATCAATTCATAC
** * ** * * ** * *
877385 TTTTAAAATAAAT-CAATACATACAAATAAAT-TATTTAAAATAAATCAATCCATATTT
1 TAATAAATTATTTAAAATAAAT-C-AATCCATAT-TTTAAAATAAATCAATTCATA--C
* * * * *
877442 TAAAATAAATCAATCTATACT-AATAAAT---TA-TTTAAAATAAATCAATAT-ATAC
1 T--AATAAAT-TATTTAAAATAAATCAATCCATATTTTAAAATAAATCAAT-TCATAC
*
877494 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCATAC
877548 TAATAAATTATTTAAAATAAATCAATCCATA
1 TAATAAATTATTTAAAATAAATCAATCCATA
877579 CAACTACAAT
Statistics
Matches: 192, Mismatches: 35, Indels: 46
0.70 0.13 0.17
Matches are distributed among these distances:
49 6 0.03
50 13 0.07
52 1 0.01
53 12 0.06
54 106 0.55
55 7 0.04
56 9 0.05
57 15 0.08
58 13 0.07
59 4 0.02
60 4 0.02
61 2 0.01
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.35
Consensus pattern (54 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCATAC
Found at i:877345 original size:32 final size:32
Alignment explanation
Indices: 877307--877579 Score: 170
Period size: 32 Copynumber: 8.7 Consensus size: 32
877297 CAATCCATAT
877307 TTTAAAATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAATTCATACTAATAAATTA
877339 TTTAAAATAAATCAATTCATAC-AACTACAA-TA
1 TTTAAAATAAATCAATTCATACTAA-TA-AATTA
* * * *
877371 -AT-AAATCAATCATATT-TTA-AAATAAATCAATA
1 TTTAAAATAAATCA-ATTCATACTAATAAAT---TA
** * * * * *
877403 CATACAAATAAAT-TATTTAAAATAAATCAATCCATA
1 TTTA-AAATAAATCAATTCATACT-AATAAAT---TA
877439 TTTTAAAATAAATCAA-TCTATACTAATAAATTA
1 -TTTAAAATAAATCAATTC-ATACTAATAAATTA
877472 TTTAAAATAAATCAATAT-ATACTAATAAATTA
1 TTTAAAATAAATCAAT-TCATACTAATAAATTA
877504 TTTAAAATAAATCAA-TC---C--AT--A-T-
1 TTTAAAATAAATCAATTCATACTAATAAATTA
*
877526 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATTCATACTAATAAATTA
*
877558 TTTAAAATAAATCAATCCATAC
1 TTTAAAATAAATCAATTCATAC
877580 AACTACAATA
Statistics
Matches: 193, Mismatches: 18, Indels: 60
0.71 0.07 0.22
Matches are distributed among these distances:
22 15 0.08
23 2 0.01
24 1 0.01
26 3 0.02
28 5 0.03
29 2 0.01
30 15 0.08
31 7 0.04
32 94 0.49
33 9 0.05
34 2 0.01
35 7 0.04
36 25 0.13
37 6 0.03
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (32 bp):
TTTAAAATAAATCAATTCATACTAATAAATTA
Found at i:877469 original size:22 final size:22
Alignment explanation
Indices: 877420--877468 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
877410 ATAAATTATT
**
877420 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
*
877442 TAAAATAAATCAATCTATACTAA
1 TAAAATAAATCAATCCATA-TAA
877465 TAAA
1 TAAA
877469 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:877482 original size:14 final size:14
Alignment explanation
Indices: 877463--877515 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 14
877453 AATCTATACT
877463 AATAAATTATTTAA
1 AATAAATTATTTAA
* *
877477 AATAAATCAATATATACT
1 AATAAAT---TATTTA-A
877495 AATAAATTATTTAA
1 AATAAATTATTTAA
877509 AATAAAT
1 AATAAAT
877516 CAATCCATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
14 14 0.45
15 5 0.16
17 5 0.16
18 7 0.23
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (14 bp):
AATAAATTATTTAA
Found at i:877530 original size:22 final size:22
Alignment explanation
Indices: 877504--877546 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
877494 TAATAAATTA
877504 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
877526 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
877547 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:877531 original size:86 final size:85
Alignment explanation
Indices: 877386--877627 Score: 370
Period size: 86 Copynumber: 2.9 Consensus size: 85
877376 TCAATCATAT
877386 TTTAAAATAAATCAATACATACAAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
1 TTTAAAATAAATCAATACATAC-AATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
877451 TCAATCTATACTAATAAATTA
65 TCAATCTATACTAATAAATTA
*
877472 TTTAAAATAAATCAATATATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
1 TTTAAAATAAATCAATACATAC-AATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
*
877537 TCAATCCATACTAATAAATTA
65 TCAATCTATACTAATAAATTA
* * *
877558 TTTAAAATAAATCAATCCATACAACTACA--A--T--AATAAATCAATCTATATTTTAAAATAAA
1 TTTAAAATAAATCAATACATACAA-TAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
877617 TCAATCTATAC
65 TCAATCTATAC
877628 ATCTACAATA
Statistics
Matches: 147, Mismatches: 8, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
80 37 0.25
82 1 0.01
84 1 0.01
85 2 0.01
86 106 0.72
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (85 bp):
TTTAAAATAAATCAATACATACAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAAT
CAATCTATACTAATAAATTA
Found at i:877555 original size:22 final size:22
Alignment explanation
Indices: 877506--877554 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
877496 ATAAATTATT
**
877506 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
877528 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
877551 TAAA
1 TAAA
877555 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:877614 original size:22 final size:22
Alignment explanation
Indices: 877589--877674 Score: 109
Period size: 22 Copynumber: 3.7 Consensus size: 22
877579 CAACTACAAT
877589 AATAAATCAATCTATATTTTAA
1 AATAAATCAATCTATATTTTAA
**
877611 AATAAATCAATCTATACATCTACAA
1 AATAAATCAATCTAT--AT-TTTAA
*
877636 TAATAAATCAATCCATATTTTAA
1 -AATAAATCAATCTATATTTTAA
877659 AATAAATCAATCTATA
1 AATAAATCAATCTATA
877675 CTAATAAATT
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
22 30 0.56
23 3 0.06
24 4 0.07
25 3 0.06
26 14 0.26
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
AATAAATCAATCTATATTTTAA
Found at i:877628 original size:48 final size:48
Alignment explanation
Indices: 877558--877719 Score: 209
Period size: 48 Copynumber: 3.2 Consensus size: 48
877548 TAATAAATTA
* *
877558 TTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCTATAT
1 TTTAAAATAAATCAATCTATACAACTACAATAATAAATCAATCCATAT
*
877606 TTTAAAATAAATCAATCTATACATCTACAATAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCTATACAACTACAATAATAAATCAATCCATAT
*
877654 TTTAAAATAAATCAATCTATACTAA-TAAATTATTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCTATAC-AACTACA--A--T--AATAAATCAATCCATAT
*
877708 TTCAAAATAAAT
1 TTTAAAATAAAT
877720 TAATTCATAC
Statistics
Matches: 101, Mismatches: 6, Indels: 8
0.88 0.05 0.07
Matches are distributed among these distances:
48 70 0.69
49 1 0.01
50 1 0.01
52 1 0.01
54 28 0.28
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (48 bp):
TTTAAAATAAATCAATCTATACAACTACAATAATAAATCAATCCATAT
Found at i:877677 original size:182 final size:181
Alignment explanation
Indices: 877472--877807 Score: 536
Period size: 182 Copynumber: 1.9 Consensus size: 181
877462 TAATAAATTA
*
877472 TTTAAAATAAATCAATATATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
1 TTTAAAATAAATCAATATATACTAATAAATTATTTAAAATAAATCAATCCATATTTCAAAATAAA
877537 TCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAC-AACTACAA-TA-AT-AAATCA
66 TCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACTAA-TA-AATTATATAAAAT-A
*
877598 ATCTATATTTTAAAATAAATCAATCTATACATCTACAATAATAAATCAATCCATAT
128 A-AT-TATTTTAAAATAAATCAATCTATACATCTACAATAATAAATCAATCCATAT
*
877654 TTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCATATTTCAAAATAAA
1 TTTAAAATAAATCAATATATACTAATAAATTATTTAAAATAAATCAATCCATATTTCAAAATAAA
* * * *
877719 TTAATTCATACTAATAAATTATTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAAT
66 TCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATATAAAATAAAT
877784 TATTTTAAAATAAATCAATCTATA
131 TATTTTAAAATAAATCAATCTATA
877808 TTTTATAATA
Statistics
Matches: 143, Mismatches: 7, Indels: 9
0.90 0.04 0.06
Matches are distributed among these distances:
181 26 0.18
182 108 0.76
183 5 0.03
184 4 0.03
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (181 bp):
TTTAAAATAAATCAATATATACTAATAAATTATTTAAAATAAATCAATCCATATTTCAAAATAAA
TCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATATAAAATAAAT
TATTTTAAAATAAATCAATCTATACATCTACAATAATAAATCAATCCATAT
Found at i:877683 original size:22 final size:22
Alignment explanation
Indices: 877560--877682 Score: 84
Period size: 22 Copynumber: 5.2 Consensus size: 22
877550 ATAAATTATT
* *
877560 TAAAATAAATCAATCCATACAA
1 TAAAATAAATCAATCTATATAA
**
877582 CTACAATAATAAATCAATCTATATTT
1 -T--AA-AATAAATCAATCTATATAA
*
877608 TAAAATAAATCAATCTATACATCTA
1 TAAAATAAATCAATCTAT--AT-AA
* * **
877633 CAATAATAAATCAATCCATATTT
1 TAA-AATAAATCAATCTATATAA
877656 TAAAATAAATCAATCTATACTAA
1 TAAAATAAATCAATCTATA-TAA
877679 TAAA
1 TAAA
877683 TTATTTAAAA
Statistics
Matches: 80, Mismatches: 12, Indels: 16
0.74 0.11 0.15
Matches are distributed among these distances:
22 30 0.38
23 11 0.14
24 4 0.05
25 6 0.08
26 29 0.36
ACGTcount: A:0.53, C:0.15, G:0.00, T:0.32
Consensus pattern (22 bp):
TAAAATAAATCAATCTATATAA
Found at i:877715 original size:22 final size:21
Alignment explanation
Indices: 877684--877728 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
877674 ACTAATAAAT
877684 TATTTAAAATAAATCAATCCA
1 TATTTAAAATAAATCAATCCA
* *
877705 TATTTCAAAATAAATTAATTCA
1 TATTT-AAAATAAATCAATCCA
877727 TA
1 TA
877729 CTAATAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (21 bp):
TATTTAAAATAAATCAATCCA
Found at i:877719 original size:54 final size:52
Alignment explanation
Indices: 877589--877850 Score: 235
Period size: 54 Copynumber: 5.1 Consensus size: 52
877579 CAACTACAAT
* ** *
877589 AATAAATCAATCTATATTTTAAAATAAATCAATCTATACATCTACA--A--T--
1 AATAAATCAATCCATATTTTAAAATAAAT-AAT-TATACAAATAAATTATTTAA
*
877637 AATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAAT-AAT-TATACAAATAAATTATTTAA
* *
877691 AATAAATCAATCCATATTTCAAAATAAATTAATTCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAA-TAATT-ATACAAATAAATTATTTAA
** *
877745 AATAAATCAAT-C-TATACT--AATAAATTATT-TA-AAATAAATTATTTTAA
1 AATAAATCAATCCATATTTTAAAATAAATAATTATACAAATAAATTA-TTTAA
* * * *
877792 AATAAATCAATCTATATTTTATAATAAATTATTTTA-AAATAAATTATTTTAA
1 AATAAATCAATCCATATTTTAAAATAAATAATTATACAAATAAATTA-TTTAA
877844 AATAAAT
1 AATAAAT
877851 AACCTTATTA
Statistics
Matches: 186, Mismatches: 14, Indels: 24
0.83 0.06 0.11
Matches are distributed among these distances:
46 9 0.05
47 18 0.10
48 41 0.22
49 8 0.04
50 7 0.04
51 11 0.06
52 29 0.16
53 2 0.01
54 60 0.32
55 1 0.01
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (52 bp):
AATAAATCAATCCATATTTTAAAATAAATAATTATACAAATAAATTATTTAA
Found at i:877751 original size:32 final size:32
Alignment explanation
Indices: 877705--877785 Score: 128
Period size: 32 Copynumber: 2.5 Consensus size: 32
877695 AATCAATCCA
877705 TATTTCAAAATAAATTAAT-TCATACTAATAAAT
1 TATTT-AAAATAAATTAATCT-ATACTAATAAAT
*
877738 TATTTAAAATAAATCAATCTATACTAATAAAT
1 TATTTAAAATAAATTAATCTATACTAATAAAT
877770 TATTTAAAATAAATTA
1 TATTTAAAATAAATTA
877786 TTTTAAAATA
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
32 39 0.87
33 6 0.13
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (32 bp):
TATTTAAAATAAATTAATCTATACTAATAAAT
Found at i:877792 original size:15 final size:15
Alignment explanation
Indices: 877731--877850 Score: 100
Period size: 15 Copynumber: 7.5 Consensus size: 15
877721 AATTCATACT
877731 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
* * *
877745 AATAAATCAATCTATACT
1 AATAAAT-TAT-TTTA-A
877763 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
877777 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
877792 AATAAATCAATCTATATTTTAT
1 AAT--A--AA--T-TATTTTAA
877814 AATAAATTATTTTAA
1 AATAAATTATTTTAA
877829 AATAAATTATTTTAA
1 AATAAATTATTTTAA
877844 AATAAAT
1 AATAAAT
877851 AACCTTATTA
Statistics
Matches: 86, Mismatches: 8, Indels: 23
0.74 0.07 0.20
Matches are distributed among these distances:
14 16 0.19
15 41 0.48
16 1 0.01
17 5 0.06
18 9 0.10
19 2 0.02
20 1 0.01
21 1 0.01
22 10 0.12
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.42
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:878205 original size:21 final size:23
Alignment explanation
Indices: 878180--878229 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 23
878170 TACACGGCCG
878180 ATCAGC-C-GCAGCAATACCAGA
1 ATCAGCGCAGCAGCAATACCAGA
*
878201 ATCAGGCGCAGCCGCAATACCAGA
1 ATCA-GCGCAGCAGCAATACCAGA
878225 ATCAG
1 ATCAG
878230 GCACATGAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 4 0.16
22 2 0.08
23 2 0.08
24 17 0.68
ACGTcount: A:0.36, C:0.32, G:0.22, T:0.10
Consensus pattern (23 bp):
ATCAGCGCAGCAGCAATACCAGA
Found at i:882836 original size:24 final size:24
Alignment explanation
Indices: 882809--882871 Score: 99
Period size: 24 Copynumber: 2.6 Consensus size: 24
882799 TGATTTGAAG
882809 GAAGCCGAGGAGGATCCAGAAGAA
1 GAAGCCGAGGAGGATCCAGAAGAA
* *
882833 GAAGCCGAGGAGGACCCAGAAGAC
1 GAAGCCGAGGAGGATCCAGAAGAA
*
882857 GAAGCAGAGGAGGAT
1 GAAGCCGAGGAGGAT
882872 GTTGAGGAGC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.40, C:0.17, G:0.40, T:0.03
Consensus pattern (24 bp):
GAAGCCGAGGAGGATCCAGAAGAA
Found at i:883008 original size:2 final size:2
Alignment explanation
Indices: 883001--883064 Score: 128
Period size: 2 Copynumber: 32.0 Consensus size: 2
882991 ACTATTAGGA
883001 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
883043 AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
883065 GATGCATGCT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 62 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:886663 original size:2 final size:2
Alignment explanation
Indices: 886656--886684 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
886646 CTTCCATGTT
886656 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
886685 CGAAAATGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Done.