Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008195.1 Hibiscus syriacus cultivar Beakdansim tig00110814_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: 1119982
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 6
Found at i:588311 original size:21 final size:21
Alignment explanation
Indices: 588287--588353 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
588277 TCATTCCTCG
588287 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
588308 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
588329 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
588350 AGAG
1 AGAG
588354 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:588311 original size:42 final size:42
Alignment explanation
Indices: 588235--588353 Score: 107
Period size: 42 Copynumber: 2.8 Consensus size: 42
588225 GACTCGCATG
* * * * * * *
588235 TCATCCCTCAAGAGTCCACTCCGATCGTTGAAGAGGCCCCTA
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
*
588277 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
* * *
588319 TCA-TCGTTGAAGAGGT-CCCTCCCACCATTCAAGAG
1 TCATTCCTCG-AGA-GTCCCCTCCCACCGTTCAAGAG
588354 CCCGATTCAC
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 4 0.06
42 58 0.91
43 2 0.03
ACGTcount: A:0.23, C:0.36, G:0.19, T:0.22
Consensus pattern (42 bp):
TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
Found at i:589730 original size:14 final size:14
Alignment explanation
Indices: 589711--589746 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
589701 ATTGTTTAAT
589711 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
589725 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
589739 TGATTTGT
1 TGATTTGT
589747 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:589890 original size:14 final size:14
Alignment explanation
Indices: 589871--589927 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
589861 GCGAAATGAA
589871 AATCGCAACGAGAG
1 AATCGCAACGAGAG
589885 AATCGCAACGAGAAATG
1 AATCGCAACGAG--A-G
*
589902 AAAATTGCAACGAGAG
1 --AATCGCAACGAGAG
589918 AATCGCAACG
1 AATCGCAACG
589928 CGAAATTAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 21 0.58
16 2 0.06
17 2 0.06
19 11 0.31
ACGTcount: A:0.46, C:0.19, G:0.25, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:589900 original size:33 final size:33
Alignment explanation
Indices: 589853--589942 Score: 135
Period size: 33 Copynumber: 2.7 Consensus size: 33
589843 AAAAAGTACT
*
589853 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
* *
589886 ATCGCAACGAGAAATGAAAATTGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
* *
589919 ATCGCAACGCGAAATTAAATTCGC
1 ATCGCAACGCGAAATGAAAATCGC
589943 GTTGCGATTT
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 50 1.00
ACGTcount: A:0.44, C:0.19, G:0.22, T:0.14
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
Found at i:589960 original size:19 final size:19
Alignment explanation
Indices: 589938--590088 Score: 62
Period size: 19 Copynumber: 8.7 Consensus size: 19
589928 CGAAATTAAA
589938 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
589957 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* *
589972 -CCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* * *
589990 TTCGCATTGAGA-----AA
1 TTCGCGTTGCGATTTTCAT
*
590004 TTCACGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
590023 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
*
590038 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* * ** *
590056 TTCGCATTGTGATAGTAAT
1 TTCGCGTTGCGATTTTCAT
590075 TTCCGCGTTGCGAT
1 TT-CGCGTTGCGAT
590089 AGACATTAAG
Statistics
Matches: 91, Mismatches: 25, Indels: 31
0.62 0.17 0.21
Matches are distributed among these distances:
14 27 0.30
16 6 0.07
17 6 0.07
19 43 0.47
20 9 0.10
ACGTcount: A:0.16, C:0.22, G:0.20, T:0.42
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:589984 original size:33 final size:32
Alignment explanation
Indices: 589942--590064 Score: 185
Period size: 33 Copynumber: 3.8 Consensus size: 32
589932 ATTAAATTCG
589942 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
* *
589975 CGTTGCGATTTTCATTTCGCATTGAGAAATT-CA
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCCT
590008 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
590041 CGTTGCGATTTTCATTTCGCATTG
1 CGTTGCGATTTTCATTTCGCATTG
590065 TGATAGTAAT
Statistics
Matches: 82, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
31 3 0.04
33 76 0.93
35 3 0.04
ACGTcount: A:0.15, C:0.23, G:0.19, T:0.43
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:590017 original size:66 final size:66
Alignment explanation
Indices: 589935--590064 Score: 242
Period size: 66 Copynumber: 2.0 Consensus size: 66
589925 ACGCGAAATT
*
589935 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGA
1 AAATTCACGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGA
590000 G
66 G
*
590001 AAATTCACGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTG
1 AAATTCACGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTG
590065 TGATAGTAAT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 62 1.00
ACGTcount: A:0.17, C:0.22, G:0.18, T:0.42
Consensus pattern (66 bp):
AAATTCACGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGA
G
Found at i:592376 original size:12 final size:12
Alignment explanation
Indices: 592359--592383 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
592349 TCTTCGGGGA
592359 CTTTTTCTTCTT
1 CTTTTTCTTCTT
592371 CTTTTTCTTCTT
1 CTTTTTCTTCTT
592383 C
1 C
592384 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:592592 original size:24 final size:24
Alignment explanation
Indices: 592558--592611 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
592548 CTGAAACATC
*
592558 ATCAAAATCCGAGTATTGACCAAT
1 ATCAAAATCCGAGTATTGACCAAG
* *
592582 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
592606 ATCAAA
1 ATCAAA
592612 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:593448 original size:20 final size:20
Alignment explanation
Indices: 593415--593493 Score: 70
Period size: 20 Copynumber: 3.9 Consensus size: 20
593405 GAATAAGTAA
* *
593415 ATCGCAATGCGATACTGACT
1 ATCGCAACGAGATACTGACT
* *
593435 ATCGCAACGAGATAAT-ACAAA
1 ATCGCAACGAGATACTGAC--T
*
593456 ATCGCAACGAGATTCTGACT
1 ATCGCAACGAGATACTGACT
* *
593476 TTCGCAACGAGATTCTGA
1 ATCGCAACGAGATACTGA
593494 AAATCACAAT
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
19 2 0.04
20 30 0.62
21 14 0.29
22 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.23
Consensus pattern (20 bp):
ATCGCAACGAGATACTGACT
Found at i:593795 original size:34 final size:34
Alignment explanation
Indices: 593700--593803 Score: 100
Period size: 40 Copynumber: 2.9 Consensus size: 34
593690 ATTCATTTGA
* * *
593700 CTATCGCAACTGGGAAATCGTAACGCGAAAATGG
1 CTATCGCAACTAGAAAATCGCAACGCGAAAATGG
* *
593734 CTATCGCAATTCGAAATGAAAAATCGCAACGCTAAAATGG
1 CTATCGCAA--C--TA-G-AAAATCGCAACGCGAAAATGG
*
593774 CTATCGCAACTAGAAAATCGCAATGCGAAA
1 CTATCGCAACTAGAAAATCGCAACGCGAAA
593804 TGAAAATCGC
Statistics
Matches: 56, Mismatches: 8, Indels: 12
0.74 0.11 0.16
Matches are distributed among these distances:
34 24 0.43
35 1 0.02
36 2 0.04
38 1 0.02
39 1 0.02
40 27 0.48
ACGTcount: A:0.40, C:0.21, G:0.20, T:0.18
Consensus pattern (34 bp):
CTATCGCAACTAGAAAATCGCAACGCGAAAATGG
Found at i:593834 original size:33 final size:33
Alignment explanation
Indices: 593797--593867 Score: 79
Period size: 33 Copynumber: 2.2 Consensus size: 33
593787 AAAATCGCAA
593797 TGCGAAATGAAAATCGCATTACGATTTTCTCGT
1 TGCGAAATGAAAATCGCATTACGATTTTCTCGT
** ** ** *
593830 TGCGATTTTCATTTTGCATTACGATTTTCTCGT
1 TGCGAAATGAAAATCGCATTACGATTTTCTCGT
593863 TGCGA
1 TGCGA
593868 TAGTCAGTTT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.41
Consensus pattern (33 bp):
TGCGAAATGAAAATCGCATTACGATTTTCTCGT
Found at i:595915 original size:20 final size:20
Alignment explanation
Indices: 595892--595945 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
595882 GAAACTTAAA
*
595892 ATCGCAACGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
*
595912 ATCGCAATGCGAAAATGGCT
1 ATCGCAATGCGAAAATGACT
595932 ATCGCAATGCGAAA
1 ATCGCAATGCGAAA
595946 TGCAAATCGC
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:0.39, C:0.22, G:0.22, T:0.17
Consensus pattern (20 bp):
ATCGCAATGCGAAAATGACT
Found at i:595954 original size:19 final size:18
Alignment explanation
Indices: 595890--595990 Score: 75
Period size: 20 Copynumber: 5.5 Consensus size: 18
595880 ACGAAACTTA
*
595890 AAATCGCAACGCGAAAATG
1 AAATCGCAATGCG-AAATG
*
595909 ACTATCGCAATGCGAAAATGG
1 A-AATCGCAATGCG-AAAT-G
**
595930 CTATCGCAATGCGAAATG
1 AAATCGCAATGCGAAATG
*
595948 CAAATCGCAA--CGACA--
1 -AAATCGCAATGCGAAATG
595963 AAATCGCAATGCGAAATG
1 AAATCGCAATGCGAAATG
595981 AAAATCGCAA
1 -AAATCGCAA
595991 CGACAAAATC
Statistics
Matches: 67, Mismatches: 7, Indels: 16
0.74 0.08 0.18
Matches are distributed among these distances:
14 9 0.13
16 4 0.06
17 4 0.06
18 1 0.01
19 21 0.31
20 27 0.40
21 1 0.01
ACGTcount: A:0.44, C:0.22, G:0.20, T:0.15
Consensus pattern (18 bp):
AAATCGCAATGCGAAATG
Found at i:595968 original size:14 final size:14
Alignment explanation
Indices: 595949--596006 Score: 53
Period size: 14 Copynumber: 3.8 Consensus size: 14
595939 TGCGAAATGC
595949 AAATCGCAACGACA
1 AAATCGCAACGACA
*
595963 AAATCGCAATGCGAAATGA
1 AAATCGCAA--CG--A-CA
595982 AAATCGCAACGACA
1 AAATCGCAACGACA
*
595996 AAATCACAACG
1 AAATCGCAACG
596007 CGAAACACAA
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
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:0.50, C:0.24, G:0.16, T:0.10
Consensus pattern (14 bp):
AAATCGCAACGACA
Found at i:595974 original size:33 final size:33
Alignment explanation
Indices: 595932--596022 Score: 137
Period size: 33 Copynumber: 2.8 Consensus size: 33
595922 GAAAATGGCT
595932 ATCGCAATGCGAAATGCAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGCAAATCGCAACGACAAA
*
595965 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGCAAATCGCAACGACAAA
* * **
595998 ATCACAACGCGAAACACAAATCGCA
1 ATCGCAATGCGAAATGCAAATCGCA
596023 TTGCGATTTT
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 52 1.00
ACGTcount: A:0.47, C:0.25, G:0.16, T:0.11
Consensus pattern (33 bp):
ATCGCAATGCGAAATGCAAATCGCAACGACAAA
Found at i:596061 original size:14 final size:14
Alignment explanation
Indices: 596042--596097 Score: 67
Period size: 14 Copynumber: 3.7 Consensus size: 14
596032 TCATTTCGCA
596042 TTGCGATTTTGTCG
1 TTGCGATTTTGTCG
*
596056 TTGCGATTTTATTTCG
1 TTGCGA-TTT-TGTCG
596072 CATTGCGATTTTGTCG
1 --TTGCGATTTTGTCG
596088 TTGCGATTTT
1 TTGCGATTTT
596098 CATTTCGCAT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
14 16 0.44
15 3 0.08
16 8 0.22
17 3 0.08
18 6 0.17
ACGTcount: A:0.11, C:0.14, G:0.23, T:0.52
Consensus pattern (14 bp):
TTGCGATTTTGTCG
Found at i:596075 original size:32 final size:33
Alignment explanation
Indices: 596023--596109 Score: 167
Period size: 32 Copynumber: 2.7 Consensus size: 33
596013 ACAAATCGCA
596023 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
596056 TTGCGATTTT-ATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
596088 TTGCGATTTTCATTTCGCATTG
1 TTGCGATTTTCATTTCGCATTG
596110 TGATAGCCAT
Statistics
Matches: 53, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
32 32 0.60
33 21 0.40
ACGTcount: A:0.13, C:0.17, G:0.21, T:0.49
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:596689 original size:23 final size:18
Alignment explanation
Indices: 596634--596696 Score: 99
Period size: 18 Copynumber: 3.5 Consensus size: 18
596624 GTCGATCAGA
*
596634 TGATGGCTCTGGGTGAGG
1 TGATAGCTCTGGGTGAGG
596652 TGATAGCTCTGGGTGAGG
1 TGATAGCTCTGGGTGAGG
*
596670 TGATAGCTCTGGGCGAGG
1 TGATAGCTCTGGGTGAGG
*
596688 TGATGGCTC
1 TGATAGCTC
596697 CCGAAGTGGA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 42 1.00
ACGTcount: A:0.14, C:0.14, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATAGCTCTGGGTGAGG
Found at i:598043 original size:20 final size:20
Alignment explanation
Indices: 598018--598060 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
598008 AATATTTTCT
598018 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
** *
598038 GAAAATGACTATCGCAACGC
1 GAAAATGAAAATCGCAACAC
598058 GAA
1 GAA
598061 TTTGACTATC
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:0.49, C:0.21, G:0.19, T:0.12
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:598066 original size:20 final size:20
Alignment explanation
Indices: 598028--598100 Score: 110
Period size: 20 Copynumber: 3.6 Consensus size: 20
598018 GAAAATGAAA
* **
598028 ATCGCAACACGAAAATGACT
1 ATCGCAACGCGAATTTGACT
598048 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAATTTGACT
598068 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAATTTGACT
*
598088 ATCGCAATGCGAA
1 ATCGCAACGCGAA
598101 ACTAAAATCG
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.21
Consensus pattern (20 bp):
ATCGCAACGCGAATTTGACT
Found at i:598353 original size:22 final size:22
Alignment explanation
Indices: 598326--598369 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
598316 GATGGAGATA
598326 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
598348 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
598370 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:598600 original size:41 final size:41
Alignment explanation
Indices: 598537--598630 Score: 143
Period size: 41 Copynumber: 2.3 Consensus size: 41
598527 CGCTTTGAAA
*
598537 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATTATGTATTATCGCATTGCGAAAGTCAGT
* * * *
598578 ATCTCGTTGCGATTTTGTATTATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATTATGTATTATCGCATTGCGAAAGTCAGT
598619 ATCGCATTGCGA
1 ATCGCATTGCGA
598631 CAGTCAGTAT
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 46 1.00
ACGTcount: A:0.22, C:0.18, G:0.23, T:0.36
Consensus pattern (41 bp):
ATCGCATTGCGATTATGTATTATCGCATTGCGAAAGTCAGT
Found at i:598623 original size:20 final size:20
Alignment explanation
Indices: 598537--598651 Score: 99
Period size: 20 Copynumber: 5.7 Consensus size: 20
598527 CGCTTTGAAA
*
598537 ATCGCATTGCGATTATGT-ATT
1 ATCGCATTGCGA-TA-GTCAGT
* *
598558 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * * *
598578 ATCTCGTTGCGATTTTGT-ATT
1 ATCGCATTGCGA--TAGTCAGT
598599 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
*
598619 ATCGCATTGCGACAGTCAGT
1 ATCGCATTGCGATAGTCAGT
*
598639 ATCGCATTACGAT
1 ATCGCATTGCGAT
598652 TTTCCCAATT
Statistics
Matches: 76, Mismatches: 14, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
19 5 0.07
20 46 0.61
21 23 0.30
22 2 0.03
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:598652 original size:61 final size:62
Alignment explanation
Indices: 598537--598654 Score: 159
Period size: 61 Copynumber: 1.9 Consensus size: 62
598527 CGCTTTGAAA
* * * * *
598537 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATT
1 ATCGCATTGCGATTATGTAGTATCGCATTGCGAAAGTCAGTATCGCATTACGATTTTGTATT
*
598599 ATCGCATTGCGA-TA-GTCAGTATCGCATTGCGACAGTCAGTATCGCATTACGATTTT
1 ATCGCATTGCGATTATGT-AGTATCGCATTGCGAAAGTCAGTATCGCATTACGATTTT
598655 CCCAATTCGC
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
60 2 0.04
61 35 0.71
62 12 0.24
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.36
Consensus pattern (62 bp):
ATCGCATTGCGATTATGTAGTATCGCATTGCGAAAGTCAGTATCGCATTACGATTTTGTATT
Found at i:598762 original size:21 final size:21
Alignment explanation
Indices: 598722--598762 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
598712 ACTGTAGACC
** *
598722 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGCAACT
598743 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATGCAAC
598763 GCGAAATGCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.29, G:0.17, T:0.20
Consensus pattern (21 bp):
ATCGCAACGCGAAATGCAACT
Found at i:598763 original size:12 final size:12
Alignment explanation
Indices: 598746--598779 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
598736 TTCAACTATC
598746 GCAACGCGAAAT
1 GCAACGCGAAAT
598758 GCAACGCGAAAT
1 GCAACGCGAAAT
598770 GCAACGCGAA
1 GCAACGCGAA
598780 TTTGCGATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.41, C:0.26, G:0.26, T:0.06
Consensus pattern (12 bp):
GCAACGCGAAAT
Found at i:603274 original size:17 final size:17
Alignment explanation
Indices: 603254--603286 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
603244 GGGCTCTGGA
603254 GCGAGCAGGTCACGGGC
1 GCGAGCAGGTCACGGGC
*
603271 GCGAGCTGGTCACGGG
1 GCGAGCAGGTCACGGG
603287 GCTTCAGCAG
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:0.15, C:0.27, G:0.48, T:0.09
Consensus pattern (17 bp):
GCGAGCAGGTCACGGGC
Found at i:604040 original size:54 final size:54
Alignment explanation
Indices: 603901--604066 Score: 157
Period size: 54 Copynumber: 3.2 Consensus size: 54
603891 AGAGAGTATT
** * * *
603901 GAACTCGAAATCTTCTTCTTA-GGGTTCGTTCCCTC-TTTATCTAGGGAGTATG
1 GAACTCGAAATCTTCTTCAAACGGGTTCGCTCCCTCTTTTATCTAGGGAGAATA
* * * *
603953 GAACTCG-AA-CGTCTTTAAACGGGTTCACTCCCTCTTTTTTC-AGGGAGAATA
1 GAACTCGAAATCTTCTTCAAACGGGTTCGCTCCCTCTTTTATCTAGGGAGAATA
* * *
604004 GAACTCGAATATCTTCTTCAAACGGGTTTGCTCCCTC-TTTCTCTAGGGAGTATA
1 GAACTCGAA-ATCTTCTTCAAACGGGTTCGCTCCCTCTTTTATCTAGGGAGAATA
604058 -AGACTCGAA
1 GA-ACTCGAA
604067 CAATCTTCAA
Statistics
Matches: 92, Mismatches: 15, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
50 6 0.07
51 29 0.32
52 13 0.14
53 7 0.08
54 37 0.40
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.34
Consensus pattern (54 bp):
GAACTCGAAATCTTCTTCAAACGGGTTCGCTCCCTCTTTTATCTAGGGAGAATA
Found at i:604100 original size:55 final size:55
Alignment explanation
Indices: 604032--604357 Score: 575
Period size: 55 Copynumber: 5.9 Consensus size: 55
604022 CAAACGGGTT
* * *
604032 TGCTCCCTCTTTC-TCTAGGGAGTATAAGACTCGAACAATCTTCAACAATCGTGTC
1 TGCTCCCTATTTCTTC-AGAGAGTATGAGACTCGAACAATCTTCAACAATCGTGTC
*
604087 TGCTCCCTATTTCTTCAGAGAGTATGAGACTCGAATAATCTTCAACAATCGTGTC
1 TGCTCCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGTGTC
604142 TGCTCCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGTGTC
1 TGCTCCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGTGTC
*
604197 TGCTCCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCATGTC
1 TGCTCCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGTGTC
*
604252 TGCTCCCTATTTCTTCAGAGAGTATGAGACTCGAACAATC-TCAACAATCGTGTT
1 TGCTCCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGTGTC
604306 TGCTCCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGT
1 TGCTCCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGT
604358 TGGGAAACTG
Statistics
Matches: 261, Mismatches: 8, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
54 52 0.20
55 207 0.79
56 2 0.01
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (55 bp):
TGCTCCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGTGTC
Found at i:605350 original size:29 final size:31
Alignment explanation
Indices: 605315--605399 Score: 88
Period size: 29 Copynumber: 2.7 Consensus size: 31
605305 ATCTTGAACC
605315 CTCATTTTTTCATTTTTTTTTTCATTTTT-A
1 CTCATTTTTTCATTTTTTTTTTCATTTTTCA
*
605345 -TTA-TTTTT-ATTTTTATTTTTTCATTTTTCA
1 CTCATTTTTTCA-TTTT-TTTTTTCATTTTTCA
*
605375 CTCATTTTTTCTTCTTCTTTTTTTC
1 CTCATTTTTTCAT-TT-TTTTTTTC
605400 TTCAAGCAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
27 1 0.02
28 9 0.20
29 15 0.34
30 1 0.02
31 2 0.05
32 6 0.14
33 9 0.20
34 1 0.02
ACGTcount: A:0.12, C:0.14, G:0.00, T:0.74
Consensus pattern (31 bp):
CTCATTTTTTCATTTTTTTTTTCATTTTTCA
Found at i:605356 original size:15 final size:14
Alignment explanation
Indices: 605318--605372 Score: 60
Period size: 15 Copynumber: 4.0 Consensus size: 14
605308 TTGAACCCTC
*
605318 ATTTTTTCA-TTTT
1 ATTTTTTTATTTTT
*
605331 -TTTTTTCATTTTT
1 ATTTTTTTATTTTT
605344 ATTATTTTTATTTTT
1 ATT-TTTTTATTTTT
*
605359 ATTTTTTCATTTTT
1 ATTTTTTTATTTTT
605373 CACTCATTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
12 8 0.22
13 4 0.11
14 12 0.32
15 13 0.35
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.80
Consensus pattern (14 bp):
ATTTTTTTATTTTT
Found at i:607242 original size:181 final size:181
Alignment explanation
Indices: 606938--607300 Score: 726
Period size: 181 Copynumber: 2.0 Consensus size: 181
606928 ATAACACAAG
606938 CCTCATATTCAACCATATTGTTTGCACAATCAAAATTGAGCCGACTGGTAAAAGGATAATGCTCT
1 CCTCATATTCAACCATATTGTTTGCACAATCAAAATTGAGCCGACTGGTAAAAGGATAATGCTCT
607003 TCACTTGGTGAGACCAAGATTGCCCCAATCCCATGCCCCAAGGCGTTTGAAGCACCATCAAAGTT
66 TCACTTGGTGAGACCAAGATTGCCCCAATCCCATGCCCCAAGGCGTTTGAAGCACCATCAAAGTT
607068 CATCTTCCAGTATATACCGGTGAGCGCAATTGTTTCTTCCTCCGAGATAGC
131 CATCTTCCAGTATATACCGGTGAGCGCAATTGTTTCTTCCTCCGAGATAGC
607119 CCTCATATTCAACCATATTGTTTGCACAATCAAAATTGAGCCGACTGGTAAAAGGATAATGCTCT
1 CCTCATATTCAACCATATTGTTTGCACAATCAAAATTGAGCCGACTGGTAAAAGGATAATGCTCT
607184 TCACTTGGTGAGACCAAGATTGCCCCAATCCCATGCCCCAAGGCGTTTGAAGCACCATCAAAGTT
66 TCACTTGGTGAGACCAAGATTGCCCCAATCCCATGCCCCAAGGCGTTTGAAGCACCATCAAAGTT
607249 CATCTTCCAGTATATACCGGTGAGCGCAATTGTTTCTTCCTCCGAGATAGC
131 CATCTTCCAGTATATACCGGTGAGCGCAATTGTTTCTTCCTCCGAGATAGC
607300 C
1 C
607301 ATTAAATCCT
Statistics
Matches: 182, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
181 182 1.00
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.27
Consensus pattern (181 bp):
CCTCATATTCAACCATATTGTTTGCACAATCAAAATTGAGCCGACTGGTAAAAGGATAATGCTCT
TCACTTGGTGAGACCAAGATTGCCCCAATCCCATGCCCCAAGGCGTTTGAAGCACCATCAAAGTT
CATCTTCCAGTATATACCGGTGAGCGCAATTGTTTCTTCCTCCGAGATAGC
Found at i:615343 original size:16 final size:16
Alignment explanation
Indices: 615322--615359 Score: 67
Period size: 16 Copynumber: 2.3 Consensus size: 16
615312 AACCTTATTC
615322 ACATGATATCTACCCA
1 ACATGATATCTACCCA
615338 ACATGATATCTACCCA
1 ACATGATATCTACCCA
615354 ATCATG
1 A-CATG
615360 CTTTAGTAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.37, C:0.29, G:0.08, T:0.26
Consensus pattern (16 bp):
ACATGATATCTACCCA
Found at i:618921 original size:2 final size:2
Alignment explanation
Indices: 618907--618952 Score: 76
Period size: 2 Copynumber: 23.5 Consensus size: 2
618897 GTCAGTATTA
*
618907 AT AT AT TT A- 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
618948 AT AT A
1 AT AT A
618953 AATAGTTTCA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:620329 original size:15 final size:16
Alignment explanation
Indices: 620309--620339 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
620299 AAAATACAAC
620309 ATTCTCA-GTAATCTT
1 ATTCTCATGTAATCTT
620324 ATTCTCATGTAATCTT
1 ATTCTCATGTAATCTT
620340 TTATTCCCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.26, C:0.19, G:0.06, T:0.48
Consensus pattern (16 bp):
ATTCTCATGTAATCTT
Found at i:621669 original size:29 final size:29
Alignment explanation
Indices: 621627--621686 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
621617 GATCAATGGA
621627 AGATCTTACTTTGAATCCTTTGATTATTT
1 AGATCTTACTTTGAATCCTTTGATTATTT
621656 AGATCTTACTTTGAATCCTTTGATTATTT
1 AGATCTTACTTTGAATCCTTTGATTATTT
621685 AG
1 AG
621687 CAGCAACCAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.25, C:0.13, G:0.12, T:0.50
Consensus pattern (29 bp):
AGATCTTACTTTGAATCCTTTGATTATTT
Found at i:625210 original size:23 final size:23
Alignment explanation
Indices: 625163--625212 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
625153 AATATCATAT
* **
625163 TAGGTAACGTTTATATAATGTAA
1 TAGGTAACGCTTATATAATAAAA
*
625186 TAGGTAGCGCTTATATAATAAAA
1 TAGGTAACGCTTATATAATAAAA
625209 TAGG
1 TAGG
625213 CATTTAACCG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.40, C:0.06, G:0.20, T:0.34
Consensus pattern (23 bp):
TAGGTAACGCTTATATAATAAAA
Found at i:625272 original size:87 final size:86
Alignment explanation
Indices: 625126--625287 Score: 263
Period size: 87 Copynumber: 1.9 Consensus size: 86
625116 AATGTTATAT
* * *
625126 CATTTAACCGGAAATATTATCAAGTACAATATCATATTAGGTAACGTTTATATAATGTAATAGGT
1 CATTTAACCGAAAATATTATCAAGTAAAATAACATATTAGGTAACGTTTATATAATGTAA-AGGT
625191 AGCGCTTATATAATAAAATAGG
65 AGCGCTTATATAATAAAATAGG
*
625213 CATTTAACCGAAAATATTATCAAGTAAAATAACATATTAGGTAGC-TCTTATATAATGTAAAGGT
1 CATTTAACCGAAAATATTATCAAGTAAAATAACATATTAGGTAACGT-TTATATAATGTAAAGGT
625277 AGCGCTTATAT
65 AGCGCTTATAT
625288 TGACCTATTT
Statistics
Matches: 70, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
86 16 0.23
87 54 0.77
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.33
Consensus pattern (86 bp):
CATTTAACCGAAAATATTATCAAGTAAAATAACATATTAGGTAACGTTTATATAATGTAAAGGTA
GCGCTTATATAATAAAATAGG
Found at i:625733 original size:73 final size:72
Alignment explanation
Indices: 625607--625764 Score: 180
Period size: 73 Copynumber: 2.2 Consensus size: 72
625597 TATAAATGTA
* * *
625607 TCGACACTTTATGGTTGCACCCTTTTTGGTATTCATTATGGACCAAAAGTATCGACACAAATTTA
1 TCGACACTTTATGGTTGCACCCTTTGTGGCATTCATCATGGACCAAAAGTATCGACACAAA-TTA
*
625672 -TCAAGTG
65 CACAAGTG
*
625679 TCGACACTTTATGCG-TGCACCTCGTTTGT-GCATTCATCCTGGA-CAATAAGTATCGACACAAA
1 TCGACACTTTATG-GTTGCACC-C-TTTGTGGCATTCATCATGGACCAA-AAGTATCGACACAAA
625741 TTACACAAGTG
62 TTACACAAGTG
* *
625752 TCGATACATTATG
1 TCGACACTTTATG
625765 TTGACATGTT
Statistics
Matches: 74, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
72 25 0.34
73 45 0.61
74 4 0.05
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (72 bp):
TCGACACTTTATGGTTGCACCCTTTGTGGCATTCATCATGGACCAAAAGTATCGACACAAATTAC
ACAAGTG
Found at i:628965 original size:251 final size:247
Alignment explanation
Indices: 628519--629250 Score: 984
Period size: 251 Copynumber: 3.0 Consensus size: 247
628509 GGTTTCGATG
* * * * * * *
628519 CTTTTGGGTTCGACACTTTTTGAAAATGTATCGACACTTTAT-GTGTT-ACCCTTTTTCGCATCC
1 CTTTTTGGATCGACACTCTATGAAAATGTATCGACACTTTGTAG-GTTCCCCCTTTTTGGCATCC
*
628582 ATTATGGACAAAAATTATCGACACAATATTAATAAGTGTTGATAC--A-TAT----TA--CTCTC
65 ATTATGGACAAAAATTATCGACACAATATTAATAAGTGTCGATACATATTATAGACTATTCTCTC
* * *
628638 ATATAACCGGTATATGTATACCGGTTATATTAAGAAATTACCTATTATATTGTAATTATGGGTTT
130 ATAAAACCGGTATATGTATA-CGGTTATATTAA-AAATTACCTATTACATTATAATTATGGGTTT
* *
628703 CGGTGTTTTTGGGATCGACACTTTTAATAAATGTATCGACACTTTATGCGTGCAAC
193 CGATATTTTTGGG-TCGACACTTTTAATAAATGTATCGACACTTTATGCGTGCAAC
*
628759 CTTTTTGGATCGACACTCTATGAAAATGTATTGACACTTTGTAGGTTCCCCCTTTTTGGCATCCA
1 CTTTTTGGATCGACACTCTATGAAAATGTATCGACACTTTGTAGGTTCCCCCTTTTTGGCATCCA
*
628824 TTATGGAAAAAAATTATCGACACAATATTAATAAGTGTCGATACATATTATAGACCTATTCTCTC
66 TTATGGACAAAAATTATCGACACAATATTAATAAGTGTCGATACATATTATAGA-CTATTCTCTC
628889 ATAAAACCGGTATATGTATAGCGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTT
130 ATAAAACCGGTATATGTATA-CGGTTATATTA-AAAATTACCTATTACATTATAATTATGGGTTT
*
628954 CGATATTTTTGGGTTCGACACTTTTAATAAATGTATCGACACTTTATACGTGCAAC
193 CGATATTTTTGGG-TCGACACTTTTAATAAATGTATCGACACTTTATGCGTGCAAC
*
629010 CCTTTTGGATCGACACTCTATGAAAATGTATCGACACTTTGTAGGTTCCCCCTTTTTGGCATCCA
1 CTTTTTGGATCGACACTCTATGAAAATGTATCGACACTTTGTAGGTTCCCCCTTTTTGGCATCCA
* * * * * *
629075 TTCTGGACAAAAATTATCGACACAATACTAATAAGTGTCGATAAATGTTGTAGACATATT-TTTC
66 TTATGGACAAAAATTATCGACACAATATTAATAAGTGTCGATACATATTATAGAC-TATTCTCTC
* * * *
629139 ATAAAACCGGTATATTTATACTGGTTTTATTGAAAAATTACCCATTACATTATAATTATGGATTT
130 ATAAAACCGGTATATGTATAC-GGTTATATT-AAAAATTACCTATTACATTATAATTATGGGTTT
* ** * * *
629204 CGATTTTTTTGGGTCGTTACTTTTTATATATGGATCGACACTTTATG
193 CGATATTTTTGGGTCGACACTTTTAATAAATGTATCGACACTTTATG
629251 GGAAACTTTA
Statistics
Matches: 438, Mismatches: 38, Indels: 23
0.88 0.08 0.05
Matches are distributed among these distances:
240 39 0.09
241 58 0.13
243 1 0.00
244 3 0.01
249 31 0.07
250 73 0.17
251 232 0.53
252 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.38
Consensus pattern (247 bp):
CTTTTTGGATCGACACTCTATGAAAATGTATCGACACTTTGTAGGTTCCCCCTTTTTGGCATCCA
TTATGGACAAAAATTATCGACACAATATTAATAAGTGTCGATACATATTATAGACTATTCTCTCA
TAAAACCGGTATATGTATACGGTTATATTAAAAATTACCTATTACATTATAATTATGGGTTTCGA
TATTTTTGGGTCGACACTTTTAATAAATGTATCGACACTTTATGCGTGCAAC
Found at i:632255 original size:201 final size:201
Alignment explanation
Indices: 631910--632649 Score: 1300
Period size: 201 Copynumber: 3.7 Consensus size: 201
631900 TATTTAAATT
* * *
631910 AGTATCGACACAAAATTAAAAAAATGTCGATACATGTTGTAGACATATTCTCTCATAAAACTGGT
1 AGTATCGACACAAAATTAAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGT
*
631975 ATATTTATACCAGTTACATTGTAAATTTACCTATTACATTATACTTATGGATGCATATGTTTATG
66 ATATTTATACCAGTTACATTGTAAATTTACCTATTACATTATACTTATGGATGCATATGTTTCTG
*
632040 GGATCGACACTTTTTGAAAATATATCGACACTTTATGCGTTCACCCTTTTTGGCATCCATTCTGG
131 GGATCGACACTTTTTGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTGGCATCCATTCTGG
632105 ACCAAA
196 ACCAAA
*
632111 AGTATCGACACAAAATTAAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACTGGT
1 AGTATCGACACAAAATTAAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGT
*** *
632176 ATATTTATATTGGTTACATTGTAAATTTACCTATTACATTATACTTATTGATGCATATGTTTCTG
66 ATATTTATACCAGTTACATTGTAAATTTACCTATTACATTATACTTATGGATGCATATGTTTCTG
* *
632241 GGATTGACACTTTTTGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTGGCATCCATTCTAG
131 GGATCGACACTTTTTGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTGGCATCCATTCTGG
632306 ACCAAA
196 ACCAAA
632312 AGTATCGACACAAAATTAAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGT
1 AGTATCGACACAAAATTAAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGT
*** *
632377 ATATTTATATTGGTTACATTGTAAATTTACCTATTACATTATACTAATGGATGCATATGTTTCTG
66 ATATTTATACCAGTTACATTGTAAATTTACCTATTACATTATACTTATGGATGCATATGTTTCTG
*
632442 AGATCGACACTTTTTGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTGGCATCCATTCTGG
131 GGATCGACACTTTTTGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTGGCATCCATTCTGG
632507 ACCAAA
196 ACCAAA
* * *
632513 AGTATCGACACAAAATTAAAAAAGTGTCTATACATGTTGTAGACCTATTCTCTTATAAAACCGAT
1 AGTATCGACACAAAATTAAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGT
632578 ATATTTATACCAGTTACATTGTAAATTTACCTATTACATTATACTTATGGATGCATATGTTTCTG
66 ATATTTATACCAGTTACATTGTAAATTTACCTATTACATTATACTTATGGATGCATATGTTTCTG
632643 GGATCGA
131 GGATCGA
632650 TAAATTTTAC
Statistics
Matches: 515, Mismatches: 24, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
201 515 1.00
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (201 bp):
AGTATCGACACAAAATTAAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGT
ATATTTATACCAGTTACATTGTAAATTTACCTATTACATTATACTTATGGATGCATATGTTTCTG
GGATCGACACTTTTTGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTGGCATCCATTCTGG
ACCAAA
Found at i:634766 original size:33 final size:33
Alignment explanation
Indices: 634729--634794 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
634719 CATCTTAAGA
* *
634729 TCACCCCTTAACACCTCAACTTCTTTCACCACT
1 TCACCCCTCAACACATCAACTTCTTTCACCACT
**
634762 TCACCCCTCAACACATTTACTTCTTTCACCACT
1 TCACCCCTCAACACATCAACTTCTTTCACCACT
634795 CCATCTATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.24, C:0.44, G:0.00, T:0.32
Consensus pattern (33 bp):
TCACCCCTCAACACATCAACTTCTTTCACCACT
Found at i:634853 original size:21 final size:21
Alignment explanation
Indices: 634828--634871 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
634818 CCCCTTATGC
634828 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
* *
634849 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
634870 CT
1 CT
634872 TGATTGTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.32, G:0.11, T:0.41
Consensus pattern (21 bp):
CTCTCAAGTGTATCTTCGACT
Found at i:637120 original size:20 final size:20
Alignment explanation
Indices: 637057--637111 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
637047 GGTAGCGCTT
*
637057 TACCAGTTTTATCATTTTGA
1 TACCGGTTTTATCATTTTGA
*
637077 TATCGGTTTTATCATTTTGA
1 TACCGGTTTTATCATTTTGA
637097 TACCGGTTTTATCAT
1 TACCGGTTTTATCAT
637112 ATTTTTACCT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.22, C:0.15, G:0.13, T:0.51
Consensus pattern (20 bp):
TACCGGTTTTATCATTTTGA
Found at i:638986 original size:5 final size:6
Alignment explanation
Indices: 638955--638985 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
638945 AAATACGAAG
638955 GGGAAA GGGAAA GGGAAA GGGAAA -GGAAA GG
1 GGGAAA GGGAAA GGGAAA GGGAAA GGGAAA GG
638986 ATGAAGTCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.21
6 19 0.79
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (6 bp):
GGGAAA
Found at i:640318 original size:16 final size:16
Alignment explanation
Indices: 640297--640331 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
640287 TACACCCCAC
640297 CCCCTCCCTATAAATA
1 CCCCTCCCTATAAATA
640313 CCCCTCCCTATAAATA
1 CCCCTCCCTATAAATA
640329 CCC
1 CCC
640332 GCATTCTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.29, C:0.49, G:0.00, T:0.23
Consensus pattern (16 bp):
CCCCTCCCTATAAATA
Found at i:640469 original size:17 final size:17
Alignment explanation
Indices: 640443--640475 Score: 50
Period size: 16 Copynumber: 1.9 Consensus size: 17
640433 TGTTGTTTTT
640443 AATTTATTTAAGTATTTA
1 AATTTATTTAA-TATTTA
640461 AATTT-TTTAATATTT
1 AATTTATTTAATATTT
640476 TATTTAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 5 0.33
18 5 0.33
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (17 bp):
AATTTATTTAATATTTA
Found at i:640477 original size:17 final size:19
Alignment explanation
Indices: 640438--640477 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 19
640428 TAATATGTTG
*
640438 TTTTTAATTTATTTAAGTA
1 TTTTAAATTTATTTAAGTA
640457 -TTTAAATTT-TTTAA-TA
1 TTTTAAATTTATTTAAGTA
640473 TTTTA
1 TTTTA
640478 TTTAATTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 4
0.79 0.04 0.17
Matches are distributed among these distances:
16 2 0.11
17 9 0.47
18 8 0.42
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (19 bp):
TTTTAAATTTATTTAAGTA
Found at i:644150 original size:34 final size:34
Alignment explanation
Indices: 644094--644170 Score: 95
Period size: 34 Copynumber: 2.2 Consensus size: 34
644084 TTATTTCATT
*
644094 AATTTGGTTGGATTTGTTTTAATTTATTTT-GTTA
1 AATTT-GTTGGATTTGTTTTAATGTATTTTGGTTA
644128 AATTTGTTGGACTTT-TTGTTAATGTATTTTGGTTA
1 AATTTGTTGGA-TTTGTT-TTAATGTATTTTGGTTA
*
644163 ATTTTGTT
1 AATTTGTT
644171 TATTACCATT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
33 8 0.21
34 19 0.50
35 11 0.29
ACGTcount: A:0.19, C:0.01, G:0.18, T:0.61
Consensus pattern (34 bp):
AATTTGTTGGATTTGTTTTAATGTATTTTGGTTA
Found at i:644230 original size:35 final size:36
Alignment explanation
Indices: 644165--644247 Score: 95
Period size: 35 Copynumber: 2.4 Consensus size: 36
644155 TTTGGTTAAT
644165 TTTGTT-TA-TTACCATTTAATATCAGCTATTGTAA-
1 TTTGTTATATTTACCATTTAATATCA-CTATTGTAAG
*
644199 TTTGTTTATCATTTACCATTTAATA-C-TTATTGTAAG
1 TTTG-TTAT-ATTTACCATTTAATATCACTATTGTAAG
644235 TTTGTTATATTTA
1 TTTGTTATATTTA
644248 AAATTATATT
Statistics
Matches: 43, Mismatches: 1, Indels: 10
0.80 0.02 0.19
Matches are distributed among these distances:
34 9 0.21
35 14 0.33
36 5 0.12
37 2 0.05
38 13 0.30
ACGTcount: A:0.28, C:0.10, G:0.08, T:0.54
Consensus pattern (36 bp):
TTTGTTATATTTACCATTTAATATCACTATTGTAAG
Found at i:656552 original size:20 final size:19
Alignment explanation
Indices: 656529--656575 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
656519 CGATATACCA
*
656529 GGTAAAAATATGATAAAATC
1 GGTAAAAA-ATGATAAAACC
*
656549 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
656569 GGTAAAA
1 GGTAAAA
656576 CGTTATCGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.53, C:0.09, G:0.17, T:0.21
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:656653 original size:181 final size:183
Alignment explanation
Indices: 656317--656790 Score: 684
Period size: 182 Copynumber: 2.6 Consensus size: 183
656307 GATCCAAATT
* * * *
656317 AAAAATGTGTCGATCCAAAACGATATAACAGGTAAAACTATGACAAAACCTGTAT-AGAAATGAT
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCA-AAATGAT
* * * * * *
656381 AAAACTGGTAAAGCGCTACCGGATACATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACTT
65 AAAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTT
* * *
656446 CGTGAATTTAAAAGAGAAGCAGTTTTAAATCCTATAAAGTGTCGATACTTT-TA
130 CGTGAATTTAAAAGAGAAACAGTTTTAAAGCCTATAAAGTGTCGATACTTTAAA
* *
656499 AAAAATGTATCGATCCAAAACGATATACCAGGTAAAAATATGATAAAATCGGTATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* * *
656564 AAACCGGTAAAACGTTATCGGATATATTAAAAGTGTCGATACTTT-ATATAAGGATCGACACTTT
66 AAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
** * *
656628 GTGAATTTAAAAGAGAAACAGTTTTAGCGCCTATAATGTGTCGATAGTTTAAA
131 GTGAATTTAAAAGAGAAACAGTTTTAAAGCCTATAAAGTGTCGATACTTTAAA
* *
656681 AAAAATATATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* *
656746 AAACCGGTAAAATGATACCGGATATATTGAAAGTGTCGATACTTT
66 AAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTT
656791 CATAAGTACG
Statistics
Matches: 261, Mismatches: 29, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
181 62 0.24
182 198 0.76
183 1 0.00
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.27
Consensus pattern (183 bp):
AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
AAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
GTGAATTTAAAAGAGAAACAGTTTTAAAGCCTATAAAGTGTCGATACTTTAAA
Found at i:656734 original size:20 final size:19
Alignment explanation
Indices: 656711--656757 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
656701 CGATATAACA
656711 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
656731 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
656751 GGTAAAA
1 GGTAAAA
656758 TGATACCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:656759 original size:17 final size:19
Alignment explanation
Indices: 656720--656762 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
656710 AGGTAAAAAT
656720 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
656740 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
656757 ATGATA
1 ATGATA
656763 CCGGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
20 13 0.57
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (19 bp):
ATGATAAAACCGGATCAAA
Found at i:658925 original size:21 final size:21
Alignment explanation
Indices: 658899--658963 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
658889 AAGACAATCA
*
658899 AGAGTCGAAGAGAAACTTGAT
1 AGAGTCGAAGAGAAACTTGAG
658920 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
658941 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
658962 AG
1 AG
658964 GCATAAGGGG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.42, C:0.11, G:0.31, T:0.17
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:659039 original size:33 final size:33
Alignment explanation
Indices: 658997--659062 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
658987 AAATAGATGG
*
658997 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
659030 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
659063 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:660884 original size:19 final size:19
Alignment explanation
Indices: 660860--660908 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
660850 AATGTAGGGT
660860 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
660879 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
660898 TAATTTTGTAT
1 TAATTTTGTAT
660909 GTGAATATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:661370 original size:200 final size:200
Alignment explanation
Indices: 661027--662203 Score: 2246
Period size: 200 Copynumber: 5.9 Consensus size: 200
661017 CAATATGGCC
* *
661027 AACAGGGTGCAACAATAAAGTGTCGAACCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
661092 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
*
661157 GAATATGTCTAAATAATGTGTCGACACTGTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
661222 TGGAA
196 TGGAA
*
661227 AACAGGGTGCAACCATAAAGTGTCAATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
661292 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
* *
661357 GAATGTGTCTAAATAATGTGTCGATACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
661422 TGGAA
196 TGGAA
*
661427 AACATGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
* *
661492 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAATATACCGATTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
661557 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
661622 TGGAA
196 TGGAA
661627 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
661692 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
661757 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
661822 TGGAA
196 TGGAA
*
661827 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
*
661892 CCAAAATTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
661957 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
662022 TGGAA
196 TGGAA
*
662027 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCAAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
662092 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
662157 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATA
662204 CTAATTTAAA
Statistics
Matches: 957, Mismatches: 20, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
200 957 1.00
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.31
Consensus pattern (200 bp):
AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
TGGAA
Found at i:663676 original size:6 final size:6
Alignment explanation
Indices: 663665--663728 Score: 65
Period size: 6 Copynumber: 10.7 Consensus size: 6
663655 CAAGCGGTCA
* * * * *
663665 ATGAAG ATGAAG CTGACG ATGAAG ATGACG ATGATG ATGACG ATGAAG
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG
* *
663713 CTGACG ATGAAG ATGA
1 ATGAAG ATGAAG ATGA
663729 TGACGATGAT
Statistics
Matches: 46, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
6 46 1.00
ACGTcount: A:0.39, C:0.09, G:0.33, T:0.19
Consensus pattern (6 bp):
ATGAAG
Found at i:663687 original size:12 final size:12
Alignment explanation
Indices: 663665--663746 Score: 101
Period size: 12 Copynumber: 6.8 Consensus size: 12
663655 CAAGCGGTCA
*
663665 ATGAAGATGAAG
1 ATGACGATGAAG
*
663677 CTGACGATGAAG
1 ATGACGATGAAG
*
663689 ATGACGATGATG
1 ATGACGATGAAG
663701 ATGACGATGAAG
1 ATGACGATGAAG
*
663713 CTGACGATGAAG
1 ATGACGATGAAG
* * *
663725 ATGATGACGATG
1 ATGACGATGAAG
663737 ATGACGATGA
1 ATGACGATGA
663747 TAATGATGAT
Statistics
Matches: 58, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 58 1.00
ACGTcount: A:0.38, C:0.10, G:0.33, T:0.20
Consensus pattern (12 bp):
ATGACGATGAAG
Found at i:663717 original size:36 final size:36
Alignment explanation
Indices: 663665--663746 Score: 137
Period size: 36 Copynumber: 2.3 Consensus size: 36
663655 CAAGCGGTCA
* *
663665 ATGAAGATGAAGCTGACGATGAAGATGACGATGATG
1 ATGACGATGAAGCTGACGATGAAGATGACGACGATG
*
663701 ATGACGATGAAGCTGACGATGAAGATGATGACGATG
1 ATGACGATGAAGCTGACGATGAAGATGACGACGATG
663737 ATGACGATGA
1 ATGACGATGA
663747 TAATGATGAT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 43 1.00
ACGTcount: A:0.38, C:0.10, G:0.33, T:0.20
Consensus pattern (36 bp):
ATGACGATGAAGCTGACGATGAAGATGACGACGATG
Found at i:663752 original size:12 final size:13
Alignment explanation
Indices: 663665--663759 Score: 87
Period size: 12 Copynumber: 7.8 Consensus size: 13
663655 CAAGCGGTCA
*
663665 ATGAAGATGA-AG
1 ATGACGATGATAG
*
663677 CTGACGATGA-AG
1 ATGACGATGATAG
663689 ATGACGATGAT-G
1 ATGACGATGATAG
663701 ATGACGATGA-AG
1 ATGACGATGATAG
*
663713 CTGACGATGA-AG
1 ATGACGATGATAG
* *
663725 ATGATGACGAT-G
1 ATGACGATGATAG
663737 ATGACGATGATA-
1 ATGACGATGATAG
*
663749 ATGATGATGAT
1 ATGACGATGAT
663760 GATCAAAACA
Statistics
Matches: 69, Mismatches: 10, Indels: 8
0.79 0.11 0.09
Matches are distributed among these distances:
12 69 1.00
ACGTcount: A:0.38, C:0.08, G:0.32, T:0.22
Consensus pattern (13 bp):
ATGACGATGATAG
Found at i:663760 original size:6 final size:6
Alignment explanation
Indices: 663682--663762 Score: 72
Period size: 6 Copynumber: 13.5 Consensus size: 6
663672 TGAAGCTGAC
* * * * * * *
663682 GATGAA GATGAC GATGAT GATGAC GATGAA GCTGAC GATGAA GATGAT
1 GATGAT GATGAT GATGAT GATGAT GATGAT GATGAT GATGAT GATGAT
* * *
663730 GACGAT GATGAC GATGAT AATGAT GATGAT GAT
1 GATGAT GATGAT GATGAT GATGAT GATGAT GAT
663763 CAAAACAAGT
Statistics
Matches: 60, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
6 60 1.00
ACGTcount: A:0.37, C:0.07, G:0.32, T:0.23
Consensus pattern (6 bp):
GATGAT
Found at i:665289 original size:183 final size:183
Alignment explanation
Indices: 664963--666452 Score: 2662
Period size: 183 Copynumber: 8.1 Consensus size: 183
664953 CAAAGTTTTC
* * *
664963 ACACTTTTTAATATTGTGTCTGTACTTTATGTCCAGAATGGAAGAAAAATATGTCGATACCATTT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
* * * *
665028 AAAAAACTGTCG--ATTGAAAAAACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAA
66 AAAAAAGTGTCGACATT---TACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAA
*
665091 TATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGATCTACAACCTATATCG
128 TATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
665147 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATA-CATTG
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATT-
* * *
665211 TCAAAAAGTGTCGACATTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATA
65 TAAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATA
* *
665276 TAACCGGTATAAATATACCGGTTTTATGAGAGAATATGTCTACAACCTATATCG
130 TAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
* *
665330 ACACTTTCTAATATTATGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
665395 AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
66 AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
* *
665460 AACCGATATAAATATACCGGTTTTATGAGCAAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
665513 ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
*
665578 AAAAAAGTGTCGACATTTACAAATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
66 AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
*
665643 AACCAGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
665696 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
665761 AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
66 AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
*
665826 AACCTGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
665879 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
665944 AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
66 AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
*
666009 AACCGGTATAAATATACCGTTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
666062 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
666127 AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
66 AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
**
666192 AACCGGTATAAATATACCATTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
666245 ACACTTTTTAATATTGTGTCGGTACTTTATGTTCAGATTGGAAGAAAAATGTGTCGATACCATTT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
*
666310 AAAAAAGTGTCGACATTTACACATCGAAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
66 AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
*
666375 AACCGGTATAAATATACTGGTTTTATGAGCGAATAGGTCTTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTC-TACAACCTATATCG
*
666429 ACACGTTTTAATATTGTGTCGGTA
1 ACACTTTTTAATATTGTGTCGGTA
666453 ATTTTAAGTA
Statistics
Matches: 1264, Mismatches: 37, Indels: 10
0.96 0.03 0.01
Matches are distributed among these distances:
183 1153 0.91
184 108 0.09
186 3 0.00
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (183 bp):
ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
Found at i:669266 original size:23 final size:23
Alignment explanation
Indices: 669235--669307 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
669225 ATAGGTAAAA
*
669235 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
669258 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
**
669281 ATATAATGTAATAGGTAATGCTT
1 ATATAATGTAATAGGTAGCGCTT
669304 ATAT
1 ATAT
669308 TGTAAAGTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:669760 original size:23 final size:23
Alignment explanation
Indices: 669730--669797 Score: 100
Period size: 23 Copynumber: 3.0 Consensus size: 23
669720 AAAAAAAATG
669730 ATGTAATAGGTAGCGCTTATATA
1 ATGTAATAGGTAGCGCTTATATA
* *
669753 ATGTAATAGGTATCGTTTATATA
1 ATGTAATAGGTAGCGCTTATATA
* *
669776 ATGTAATAGGTAGTGGTTATAT
1 ATGTAATAGGTAGCGCTTATAT
669798 TGTAAAGTAT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATGTAATAGGTAGCGCTTATATA
Found at i:669952 original size:490 final size:490
Alignment explanation
Indices: 669027--669963 Score: 1761
Period size: 490 Copynumber: 1.9 Consensus size: 490
669017 CGATATATAT
669027 TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
1 TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
669092 TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAA
66 TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAA
669157 ACATAAATTACATAACTTTAAATAAAGTATCGATCCTTTTTATAAAAAGTATGGAAACTTTCAAT
131 ACATAAATTACATAACTTTAAATAAAGTATCGATCCTTTTTATAAAAAGTATGGAAACTTTCAAT
*
669222 ATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAA
196 ATAATAGGTAAAAAAATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAA
669287 TGTAATAGGTAATGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTC
261 TGTAATAGGTAATGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTC
669352 ACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTA
326 ACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTA
669417 TAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAATAAAC
391 TAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAATAAAC
669482 ATATATATTACATATTTATTATTATCTTTGGTTAA
456 ATATATATTACATATTTATTATTATCTTTGGTTAA
* *
669517 TATTGTTAAATT-TAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
1 TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
*
669581 TGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAA
66 TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAA
*
669646 ACATAAATTACATAACTTTAAA-AGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAA
131 ACATAAATTACATAACTTTAAATA-AAGTATCGATCCTTTTTATAAAAAGTATGGAAACTTTCAA
*
669710 TATAATAGGTAAAAAAAATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATAT
195 TATAATAGGT-AAAAAAATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATAT
* * *
669775 AATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTT
259 AATGTAATAGGTAATGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTT
669840 TCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAAT
324 TCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAAT
669905 TATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAA
389 TATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAA
669964 TTCTAAATAT
Statistics
Matches: 436, Mismatches: 9, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
488 1 0.00
489 186 0.43
490 249 0.57
ACGTcount: A:0.41, C:0.07, G:0.12, T:0.40
Consensus pattern (490 bp):
TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAA
ACATAAATTACATAACTTTAAATAAAGTATCGATCCTTTTTATAAAAAGTATGGAAACTTTCAAT
ATAATAGGTAAAAAAATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAA
TGTAATAGGTAATGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTC
ACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTA
TAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAATAAAC
ATATATATTACATATTTATTATTATCTTTGGTTAA
Found at i:670189 original size:23 final size:23
Alignment explanation
Indices: 670163--670227 Score: 103
Period size: 23 Copynumber: 2.8 Consensus size: 23
670153 AAATATGATG
670163 TAATAGGTAGCGCTTATATAATA
1 TAATAGGTAGCGCTTATATAATA
* *
670186 TAATAGGTAGCGTTTATATAATG
1 TAATAGGTAGCGCTTATATAATA
*
670209 TAATAGGTAGTGCTTATAT
1 TAATAGGTAGCGCTTATAT
670228 TGTAAAGTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.35, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
TAATAGGTAGCGCTTATATAATA
Found at i:670231 original size:21 final size:22
Alignment explanation
Indices: 670155--670232 Score: 95
Period size: 23 Copynumber: 3.5 Consensus size: 22
670145 ATAGGTAAAA
670155 ATATGATGTAATAGGTAGCGCTT
1 ATAT-ATGTAATAGGTAGCGCTT
* *
670178 ATATAATATAATAGGTAGCGTTT
1 ATAT-ATGTAATAGGTAGCGCTT
*
670201 ATATAATGTAATAGGTAGTGCTT
1 ATAT-ATGTAATAGGTAGCGCTT
670224 ATAT-TGTAA
1 ATATATGTAA
670233 AGTATCTATC
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
21 5 0.10
23 44 0.90
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (22 bp):
ATATATGTAATAGGTAGCGCTT
Found at i:670322 original size:430 final size:431
Alignment explanation
Indices: 669517--672235 Score: 1955
Period size: 430 Copynumber: 6.0 Consensus size: 431
669507 CTTTGGTTAA
* *
669517 TATTGTTAAATT-TAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
1 TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
*
669581 TGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAA
66 TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAA
669646 ACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAAT
131 ACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAAT
* * * *
669711 ATAATAGGTAAAAAAAATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATA
196 ATAATAGGTAAAAAATATGATATAATAGGTAGCGCTTATATAATATAATAGGTAGCGTTTATATA
* *
669776 ATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTT
261 ATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTT
*
669841 CACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATT
326 CACAGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATT
669906 ATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATAT
391 ATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATAT
669947 TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
1 TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
*
670012 TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAATATGAAACACTATTAAAAAAATTGAA
66 TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAA
670077 ACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAAT
131 ACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAAT
*
670142 ATAATAGGT-AAAAATATGATGTAATAGGTAGCGCTTATATAATATAATAGGTAGCGTTTATATA
196 ATAATAGGTAAAAAATATGATATAATAGGTAGCGCTTATATAATATAATAGGTAGCGTTTATATA
670206 ATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTT
261 ATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTT
*
670271 CACAGTGGAAAATATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATT
326 CACAGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATT
670336 ATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATAT
391 ATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATAT
*** * * * * * ** ** ** ** *
670377 TATTATTAAATTAAAAACAATAAACA-TA-TATATTACATATTTATTATTATC-TTTGGTTAATA
1 TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATA-TCAAAACAATCAAATAATT--TT
* * * * * * ** ** * * * * **
670439 TTGT-TAAATTTAAATT-CTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGT
63 TTGTGCAAA-TGAAATTATTAAAT-TAATATTGT-AGGT-GGAAAAC-ATGAAA-CA-CTATTAA
** * *** ** * *
670502 GTAAA-TGAAATTATTAAATTA-AT-A-TTGTAGGTGGAAAACAT-GAAACAC-TATTA-AAAAA
121 AAAAATTGAAA-CA-TAAATTACATAACTT-TA-AAAG-AAGTATCG-ATC-CTTTTTATAAAAA
* * * * * ** * *
670560 -AATTGAAAC-ATAAAT-TACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGA
179 GTATGGACACTTTCAATATA-AT-A-GGTAAAA-AA-TAT-GA-------TATAATAGGTA--G-
* *
670622 CACTTTCAATATAATAGGTAAAAAAATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTA-T
228 --C--GC--T-T-ATA--T-----AAT-A--TAATAGGTAGCGTTTATATAATGTAATAGGTAGT
* * ** * * ** * * *
670686 CGTTTATATAATGT-AA-TATGTAGTGGTTATATTGT-AAAGTATATATCCTTTTTATAAAAGTG
275 -GCTTATAT--TGTAAAGTATCTA-TCCTT-T-TTATAAAAGTGTCCATACTTTTT-TCACAGTG
** * * * ** * * * * * * **
670748 TCTATAC-TT-TTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGCGAGTTTTAAGAT
333 -GAAAACATTAATTT-A---AGGTTATC--T--TTTGA-GTGA-GTTTT-A-AGA-TATTAATTT
*
670811 ATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATAT
384 AGTAA-TT-------ATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATAT
*
670867 TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATTAAATAATTTTTTG
1 TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
*
670932 TGCAAATGAAATTATTAAATTAATATTGTAGGTAGAAAACATGAAACACTATTAAAAAAAATTGA
66 TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGA
*
670997 AACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATTAAAAGTATGGACACTTTCAA
130 AACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAA
* * * *
671062 TATAATAGGT-AAAAATATGATGTAATATGTAGCGCTTATATAATGTAATATGTAGCGTTTATAT
195 TATAATAGGTAAAAAATATGATATAATAGGTAGCGCTTATATAATATAATAGGTAGCGTTTATAT
* *
671126 AATGTAATAGGTAGTGCTAATATTGTAAAATATCTATCCTTTTTATAAAAGTGTCCATACTTTTT
260 AATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTT
* *
671191 TCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGCGAGTTTTAAGATATTAATTTAGTAAT
325 TCACAGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAAT
671256 TATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATAT
390 TATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATAT
*** * * * * * ** ** ** ** *
671298 TATTATTAAATTAAAAACAATAAACA-TA-TATATTACATATTTATTATTATC-TTTGGTTAATA
1 TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATA-TCAAAACAATCAAATAATT--TT
* * * * * * ** ** * * * * **
671360 TTGT-TAAATTTAAATT-CTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGT
63 TTGTGCAAA-TGAAATTATTAAAT-TAATATTGT-AGGT-GGAAAAC-ATGAAA-CA-CTATTAA
** * *** ** * *
671423 GTAAA-TGAAATTATTAAATTA-AT-A-TTGTAGGTGGAAAACAT-GAAACAC-TATTA-AAAAA
121 AAAAATTGAAA-CA-TAAATTACATAACTT-TA-AAAG-AAGTATCG-ATC-CTTTTTATAAAAA
** * * * * ** * *
671481 AAATTGAAAC-ATAAAT-TACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGA
179 GTATGGACACTTTCAATATA-AT-A-GGTAAAA-AA-TAT-GA-------TATAATAGGTA--G-
* *
671544 CACTTTCAATATAATAGGTAAAAAAATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTA-T
228 --C--GC--T-T-ATA--T-----AAT-A--TAATAGGTAGCGTTTATATAATGTAATAGGTAGT
* * ** * * * * * *
671608 CGTTTATATAATGT-AA-TATGTAGTGGTTATATTGT-AAAGTATCTATCCTTTTTATAAAAGTG
275 -GCTTATAT--TGTAAAGTATCTA-TCCTT-T-TTATAAAAGTGTCCATACTTTTT-TCACAGTG
** * * * ** * * * * * * **
671670 TCTATAC-TT-TTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGAT
333 -GAAAACATTAATTT-A---AGGTTATC--T--TTTGA-GTGA-GTTTT-A-AGA-TATTAATTT
* *
671733 ATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTATGTTACGATATATAT
384 AGTAA-TT-------ATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATAT
671789 TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
1 TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
671854 TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAA
66 TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAA
671919 ACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAAT
131 ACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAAT
*
671984 ATAATAGGT-AAAAATATGATATAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATA
196 ATAATAGGTAAAAAATATGATATAATAGGTAGCGCTTATATAATATAATAGGTAGCGTTTATATA
*
672048 ATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCCATACTTTTTT
261 ATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTT
*
672113 CACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATT
326 CACAGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATT
*
672178 ATAGGCGTCTAATGATTTATATTTTACGTTACGATATATAT
391 ATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATAT
672219 TATTATTAAATTAAAAA
1 TATTATTAAATTAAAAA
672236 CAATAAACAT
Statistics
Matches: 1725, Mismatches: 359, Indels: 410
0.69 0.14 0.16
Matches are distributed among these distances:
428 11 0.01
429 27 0.02
430 340 0.20
431 270 0.16
432 8 0.00
433 22 0.01
434 35 0.02
435 37 0.02
436 41 0.02
437 9 0.01
438 17 0.01
439 17 0.01
440 5 0.00
441 5 0.00
442 7 0.00
443 6 0.00
444 4 0.00
445 1 0.00
446 9 0.01
447 12 0.01
448 5 0.00
449 4 0.00
450 14 0.01
451 34 0.02
452 27 0.02
453 49 0.03
454 43 0.02
455 2 0.00
456 5 0.00
457 7 0.00
458 3 0.00
459 1 0.00
460 1 0.00
461 1 0.00
462 1 0.00
463 3 0.00
464 7 0.00
465 6 0.00
466 2 0.00
467 45 0.03
468 47 0.03
469 27 0.02
470 35 0.02
471 13 0.01
472 4 0.00
473 5 0.00
474 13 0.01
475 9 0.01
476 1 0.00
477 4 0.00
478 7 0.00
479 6 0.00
480 5 0.00
481 5 0.00
482 17 0.01
483 17 0.01
484 9 0.01
485 41 0.02
486 37 0.02
487 35 0.02
488 22 0.01
489 9 0.01
490 82 0.05
491 94 0.05
492 27 0.02
493 11 0.01
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.40
Consensus pattern (431 bp):
TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAA
ACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAAT
ATAATAGGTAAAAAATATGATATAATAGGTAGCGCTTATATAATATAATAGGTAGCGTTTATATA
ATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTT
CACAGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATT
ATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATAT
Found at i:670680 original size:23 final size:23
Alignment explanation
Indices: 670650--670717 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
670640 TAAAAAAATG
670650 ATGTAATAGGTAGCGCTTATATA
1 ATGTAATAGGTAGCGCTTATATA
* *
670673 ATGTAATAGGTATCGTTTATATA
1 ATGTAATAGGTAGCGCTTATATA
* * *
670696 ATGTAATATGTAGTGGTTATAT
1 ATGTAATAGGTAGCGCTTATAT
670718 TGTAAAGTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.34, C:0.04, G:0.21, T:0.41
Consensus pattern (23 bp):
ATGTAATAGGTAGCGCTTATATA
Found at i:670735 original size:920 final size:920
Alignment explanation
Indices: 668948--675402 Score: 9684
Period size: 920 Copynumber: 6.8 Consensus size: 920
668938 AGGTATATAC
668948 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
669013 GTTACGATATATATTATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAAT
66 GTTACGATATATATTATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAAT
*
669078 CAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTA
131 CAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAATATGAAACACTA
669143 TTAAAAAAATTGAAACATAAATTACATAACTTTAAATA-AAGTATCGATCCTTTTTATAAAAAGT
196 TTAAAAAAATTGAAACATAAATTACATAACTTTAAA-AGAAGTATCGATCCTTTTTATAAAAAGT
*
669207 ATGGAAACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAG
260 ATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAG
*
669272 GTAGCGTTTATATAATGTAATAGGTAATGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGT
325 GTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGT
669337 GTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATA
390 GTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATA
669402 TTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAA
455 TTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAA
669467 TTAAAAACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAA
520 TTAAAAACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAA
669532 ATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATT
585 ATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATT
669597 AAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGAAACATAAATTACATAA
650 AAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAA
669661 CTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAAA
715 CTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGT-AAAAA
*
669726 AATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTG
779 AATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTG
*
669791 GTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAAACAT
844 CTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAAACAT
669856 TAATTTAAGGTT
909 TAATTTAAGGTT
669868 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
669933 GTTACGATATATATTATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAAT
66 GTTACGATATATATTATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAAT
669998 CAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAATATGAAACACTA
131 CAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAATATGAAACACTA
670063 TTAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTA
196 TTAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTA
*
670128 TGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATATAATAGG
261 TGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGG
670193 TAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTG
326 TAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTG
* *
670258 TCCATACTTTTTTCACAGTGGAAAATATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATAT
391 TCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATAT
670323 TAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAAT
456 TAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAAT
670388 TAAAAACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAA
521 TAAAAACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAA
670453 TTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTA
586 TTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTA
670518 AATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAAC
651 AATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAAC
670583 TTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAAAA
716 TTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAAAA
* * *
670648 TGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATATGTAGTGGT
781 TGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCT
*
670713 TATATTGTAAAGTATATATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAAACATTA
846 TATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAAACATTA
670778 ATTTAAGGTT
911 ATTTAAGGTT
*
670788 ATCTTTTGAGCGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
670853 GTTACGATATATATTATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAAT
66 GTTACGATATATATTATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAAT
* * *
670918 TAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTAGAAAACATGAAACACTA
131 CAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAATATGAAACACTA
*
670983 TTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATTAAAAGT
196 TT-AAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGT
* *
671048 ATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATATGTAGCGCTTATATAATGTAATAT
260 ATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAG
* *
671113 GTAGCGTTTATATAATGTAATAGGTAGTGCTAATATTGTAAAATATCTATCCTTTTTATAAAAGT
325 GTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGT
*
671178 GTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGCGAGTTTTAAGATA
390 GTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATA
671243 TTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAA
455 TTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAA
671308 TTAAAAACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAA
520 TTAAAAACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAA
671373 ATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATT
585 ATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATT
671438 AAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAAATTGAAACATAAATTACATA
650 AAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAAATTGAAACATAAATTACATA
671503 ACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAA
714 ACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAA
* *
671568 AATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATATGTAGTG
779 AATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTG
*
671633 GTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAAACAT
844 CTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAAACAT
671698 TAATTTAAGGTT
909 TAATTTAAGGTT
*
671710 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAT
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
671775 GTTACGATATATATTATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAAT
66 GTTACGATATATATTATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAAT
*
671840 CAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTA
131 CAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAATATGAAACACTA
671905 TTAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTA
196 TTAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTA
*
671970 TGGACACTTTCAATATAATAGGTAAAAATATGATATAATAGGTAGCGCTTATATAATGTAATAGG
261 TGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGG
*
672035 TAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCATTTTTATAAAAGTG
326 TAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTG
672100 TCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATAT
391 TCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATAT
*
672165 TAATTTAGTAATTATAGGCGTCTAATGATTTATATTTTACGTTACGATATATATTATTATTAAAT
456 TAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAAT
*
672230 TAAAAACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATCGTTAAATTTAAA
521 TAAAAACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAA
*
672295 TTCTAAATATTATTTTGTAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTA
586 TTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTA
672360 AATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAAC
651 AATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAAC
*
672425 TTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATA
716 TTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAAAA
*
672490 TGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATATGTAGTGCT
781 TGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCT
* *
672555 TATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTA
846 TATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAAACATTA
672620 ATTTAAGGTT
911 ATTTAAGGTT
672630 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
* *
672695 GTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
66 GTTACGATATATATTATTATTAAATT--AAA-AAT--TC-TAAATATT--AT-TTTA-TA--A--
* ** * ** *
672760 TTTGGTTAATATTGTTAAATTTA-AATTCTAAAT-ATTATTTTGTAAAATATCAAAACAATCAAA
117 -------AATA---TCAAA---ACAA-TC-AAATAATT-TTTTGTGCAA-AT-GAAATTATTAAA
* * * * * * * *
672823 -TAAT-TTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACA-TGAAACACT--
164 TTAATATTGTAG-GT---GGAAAATATGAAA-CACTA-T-TA-----AAAAAATTGAAACA-TAA
* * * * * * * *
672883 ATTAAAAAAAATTGAAACATAAAT-TAC-ATAAC--TTTAAAAGAAGTATCGATCCTTTTTATAA
216 ATT-ACATAACTTTAAA-AGAAGTAT-CGAT-CCTTTTTATAA-AA--A--G------T------
672944 AAAGTTTGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGT
260 --A---TGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGT
673009 AATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATA
320 AATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATA
*
673074 AAAGTGTCCATACTTTTTTCACTGTGAAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTA
385 AAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTA
673139 AGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
450 AGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
673204 TTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAA
515 TTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAA
*
673269 TTTAAATTCTAAATATTATTTTGTAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAA
580 TTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAA
673334 TTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGAAACATAAATTA
645 TTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTA
673398 CATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTA
710 CATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTA
* *
673463 AAAATATGATGTAATAGGTAGCGCTTATATAATATAATAGGTAGCGTTTATATAATGTAATAGGT
775 AAAAAATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGT
*
673528 AGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAA
840 AGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAA
673593 ACATTAATTTAAGGTT
905 ACATTAATTTAAGGTT
673609 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
* *
673674 GTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
66 GTTACGATATATATTATTATTAAATT--AAA-AAT--TC-TAAATATT--AT-TTTA-TA--A--
* ** * ** *
673739 TTTGGTTAATATTGTTAAATTTA-AATTCTAAAT-ATTATTTTGTAAAATATCAAAACAATCAAA
117 -------AATA---TCAAA---ACAA-TC-AAATAATT-TTTTGTGCAA-AT-GAAATTATTAAA
* * * * * * * *
673802 -TAAT-TTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGCGGAAAACA-TGAAACACTAT
164 TTAATATTGTAG-GT---GGAAAATATGAAA-CACTA-T-TA-----AAAAAATTGAAACA-TA-
**
673864 TAAAAAAATTGTAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTAT
215 -AATT-----------------ACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTAT
*
673929 GGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGATAGCGCTTATATAATGTAATAGGT
262 GGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGT
673994 AGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGT
327 AGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGT
674059 CCATACTTTTTTCACTGTGG-AAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATT
392 CCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATT
674123 AATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATT
457 AATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATT
*
674188 AAAAAAAATAAACATATATA-T--ATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAAT
522 AAAAACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAAT
* *
674250 TCTAAATATTATTTTGTAAAATATCAAAACAATTAAATAATTTTTTGTGTAAATGAAATTATTAA
587 TCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAA
674315 ATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACT
652 ATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACT
*
674380 TTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATAT
717 TTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAAAAT
*
674445 GATGTAATAGGTAACGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTT
782 GATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTT
674510 ATATTGTAAAGTATCTATCCTTTTTATAAAAGTGT-TCATACTTTTTTCACTGTGGAAAACATTA
847 ATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCT-ATACTTTTTTCACTGTGGAAAACATTA
674574 ATTTAAGGTT
911 ATTTAAGGTT
674584 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
*
674649 GTTACGGTATATATTATTATTAAATTAAAAACAATAAACATACATTACATATTTATTATTATCTT
66 GTTACGATATATATTATTATTAAATT--AAA-AAT-----T-C--T--A-A---A-TATTAT-TT
* * * * * ** * ** *
674714 TGGTTAATATTGTTAAATTTA-AATTCTAAAT-ATTATTTTATAAAATATCAAAACAATCAAA-T
112 T--ATAA-AATATCAAA---ACAA-TC-AAATAATT-TTTTGTGCAA-AT-GAAATTATTAAATT
* * * * * * * *
674776 AAT-TTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACA-TGAAACACT--AT
166 AATATTGTAG-GT---GGAAAATATGAAA-CACTA-T-TA-----AAAAAATTGAAACA-TAAAT
* * * * * * * ** *
674837 TAAAAAAATTGAAACATAAAT-TAC-ATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAATGT
218 TACATAACTTTAAA-AGAAGTAT-CGAT-CCTTT-TTATAA------------------AAA-GT
674900 ATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAG
260 ATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAG
674965 GTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGT
325 GTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGT
675030 GTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATA
390 GTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATA
675095 TTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAA
455 TTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAA
*
675160 TTAAAAACAATAAACATATATATTACATATTTATTATTATCTTTCGTTAATATTGTTAAATTTAA
520 TTAAAAACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAA
*
675225 ATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATT
585 ATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATT
*
675290 AAATTAATATTGTAGGTAGAAAACATGAAACACTATT-AAAAAAATTGAAACATAAATTACATAA
650 AAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAA
* *
675354 CTTTAAAAAAAGTATCGATCCTTTTTATAAAATGTATGGACACTTTCAA
715 CTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAA
675403 CATATTATAT
Statistics
Matches: 5265, Mismatches: 128, Indels: 228
0.94 0.02 0.04
Matches are distributed among these distances:
919 1 0.00
920 1335 0.25
921 1044 0.20
922 429 0.08
923 3 0.00
925 1 0.00
926 7 0.00
928 2 0.00
929 4 0.00
930 2 0.00
932 1 0.00
941 4 0.00
944 4 0.00
946 2 0.00
947 6 0.00
948 16 0.00
949 8 0.00
950 8 0.00
952 21 0.00
953 12 0.00
954 4 0.00
955 2 0.00
958 9 0.00
959 21 0.00
960 12 0.00
961 1 0.00
963 1 0.00
969 2 0.00
972 3 0.00
973 260 0.05
974 268 0.05
975 329 0.06
976 78 0.01
977 265 0.05
978 150 0.03
979 483 0.09
980 422 0.08
981 1 0.00
982 1 0.00
983 1 0.00
984 1 0.00
985 5 0.00
986 3 0.00
987 4 0.00
989 1 0.00
995 1 0.00
997 1 0.00
998 6 0.00
999 14 0.00
1000 6 0.00
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.40
Consensus pattern (920 bp):
ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
GTTACGATATATATTATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAAT
CAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAATATGAAACACTA
TTAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTA
TGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGG
TAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTG
TCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATAT
TAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAAT
TAAAAACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAA
TTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTA
AATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAAC
TTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAAAA
TGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCT
TATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAAACATTA
ATTTAAGGTT
Found at i:670872 original size:490 final size:490
Alignment explanation
Indices: 669947--670883 Score: 1732
Period size: 490 Copynumber: 1.9 Consensus size: 490
669937 CGATATATAT
669947 TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
1 TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
*
670012 TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAATATGAAACACTATTAAAAAAATTGAA
66 TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAA
670077 ACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAAT
131 ACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAAT
*
670142 ATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATATAATAGGTAGCGTTTATATAA
196 ATAATAGGTAAAAAAATGATGTAATAGGTAGCGCTTATATAATATAATAGGTAGCGTTTATATAA
*
670207 TGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTC
261 TGTAATAGGTAGTGCTTATATTGTAAAGTATATATCCTTTTTATAAAAGTGTCCATACTTTTTTC
* *
670272 ACAGTGGAAAATATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTA
326 ACAGTGGAAAACATTAATTTAAGGTTATCTTTTGAGCGAGTTTTAAGATATTAATTTAGTAATTA
670337 TAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAATAAAC
391 TAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAATAAAC
670402 ATATATATTACATATTTATTATTATCTTTGGTTAA
456 ATATATATTACATATTTATTATTATCTTTGGTTAA
* *
670437 TATTGTTAAATT-TAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
1 TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
*
670501 TGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGA
66 TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGA
670566 AACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAA
130 AACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAA
* *
670631 TATAATAGGTAAAAAAATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATA
195 TATAATAGGTAAAAAAATGATGTAATAGGTAGCGCTTATATAATATAATAGGTAGCGTTTATATA
* * *
670696 ATGTAATATGTAGTGGTTATATTGTAAAGTATATATCCTTTTTATAAAAGTGTCTATACTTTTTT
260 ATGTAATAGGTAGTGCTTATATTGTAAAGTATATATCCTTTTTATAAAAGTGTCCATACTTTTTT
*
670761 CACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGCGAGTTTTAAGATATTAATTTAGTAATT
325 CACAGTGGAAAACATTAATTTAAGGTTATCTTTTGAGCGAGTTTTAAGATATTAATTTAGTAATT
670826 ATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAA
390 ATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAA
670884 TTCTAAATAT
Statistics
Matches: 432, Mismatches: 14, Indels: 2
0.96 0.03 0.00
Matches are distributed among these distances:
489 102 0.24
490 330 0.76
ACGTcount: A:0.41, C:0.07, G:0.12, T:0.40
Consensus pattern (490 bp):
TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAA
ACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAAT
ATAATAGGTAAAAAAATGATGTAATAGGTAGCGCTTATATAATATAATAGGTAGCGTTTATATAA
TGTAATAGGTAGTGCTTATATTGTAAAGTATATATCCTTTTTATAAAAGTGTCCATACTTTTTTC
ACAGTGGAAAACATTAATTTAAGGTTATCTTTTGAGCGAGTTTTAAGATATTAATTTAGTAATTA
TAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAATAAAC
ATATATATTACATATTTATTATTATCTTTGGTTAA
Found at i:671107 original size:23 final size:23
Alignment explanation
Indices: 671076--671148 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
671066 ATAGGTAAAA
*
671076 ATATGATGTAATATGTAGCGCTT
1 ATATAATGTAATATGTAGCGCTT
*
671099 ATATAATGTAATATGTAGCGTTT
1 ATATAATGTAATATGTAGCGCTT
* * *
671122 ATATAATGTAATAGGTAGTGCTA
1 ATATAATGTAATATGTAGCGCTT
671145 ATAT
1 ATAT
671149 TGTAAAATAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.36, C:0.05, G:0.19, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATATGTAGCGCTT
Found at i:671253 original size:431 final size:431
Alignment explanation
Indices: 670437--672235 Score: 1962
Period size: 431 Copynumber: 4.0 Consensus size: 431
670427 CTTTGGTTAA
* *
670437 TATTGTTAAATT-TAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
1 TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
* *
670501 TGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGA
66 TGCAAATGAAATTATTAAATTAATATTGTAGGTAGAAAACATGAAACACTATTAAAAAAAATTGA
670566 AACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAA
131 AACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAA
* * *
670631 TATAATAGGTAAAAAAATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATA
196 TATAATAGGTAAAAATATGATATAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATA
* * * * * *
670696 ATGTAATATGTAGTGGTTATATTGTAAAGTATATATCCTTTTTATAAAAGTGTCTATACTTTTTT
261 ATGTAATAGGTAGTGCTAATATTGTAAAATATCTATCCTTTTTATAAAAGTGTCCATACTTTTTT
670761 CACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGCGAGTTTTAAGATATTAATTTAGTAATT
326 CACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGCGAGTTTTAAGATATTAATTTAGTAATT
670826 ATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATAT
391 ATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATAT
*
670867 TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATTAAATAATTTTTTG
1 TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
670932 TGCAAATGAAATTATTAAATTAATATTGTAGGTAGAAAACATGAAACACTATTAAAAAAAATTGA
66 TGCAAATGAAATTATTAAATTAATATTGTAGGTAGAAAACATGAAACACTATTAAAAAAAATTGA
*
670997 AACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATTAAAAGTATGGACACTTTCAA
131 AACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAA
* * *
671062 TATAATAGGTAAAAATATGATGTAATATGTAGCGCTTATATAATGTAATATGTAGCGTTTATATA
196 TATAATAGGTAAAAATATGATATAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATA
671127 ATGTAATAGGTAGTGCTAATATTGTAAAATATCTATCCTTTTTATAAAAGTGTCCATACTTTTTT
261 ATGTAATAGGTAGTGCTAATATTGTAAAATATCTATCCTTTTTATAAAAGTGTCCATACTTTTTT
671192 CACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGCGAGTTTTAAGATATTAATTTAGTAATT
326 CACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGCGAGTTTTAAGATATTAATTTAGTAATT
671257 ATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATAT
391 ATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATAT
*** * * * * * ** ** ** ** *
671298 TATTATTAAATTAAAAACAATAAACA-TA-TATATTACATATTTATTATTATC-TTTGGTTAATA
1 TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATA-TCAAAACAATCAAATAATT--TT
* * * * * * ** * * * * * ***
671360 TTGT-TAAATTTAAATT-CTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGT
63 TTGTGCAAA-TGAAATTATTAAAT-TAATATTGT-AGGTA-GAAAAC-ATGAAA-CACTATTAAA
** * *** ** * *
671423 GTAAA-TGAAATTATTAAATTA-AT-A-TTGTAGGTGGAAAACAT-GAAACAC-TATTA-AAAAA
122 AAAAATTGAAA-CA-TAAATTACATAACTT-TA-AAAG-AAGTATCG-ATC-CTTTTTATAAAAA
** * * * * ** * *
671481 AAATTGAAAC-ATAAAT-TACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGA
180 GTATGGACACTTTCAATATA-AT-A-GGT-AAA-AA-TAT-GA-------TATAATAGGTA--G-
* *
671544 CACTTTCAATATAATAGGTAAAAAAATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTA-T
228 --C--GC--T-T-ATA--T------A--ATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGT
* * * ** * * * *
671608 CGTTTATATAATGT--AATATGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGT
275 -G-CTA-ATATTGTAAAATATCTA-TCCTT-T-TTATAAA--A-GTGTCC-AT------------
*
671671 CTATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATT
318 ----ACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGCGAGTTTTAAGATATT
*
671736 AATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTATGTTACGATATATAT
379 AATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATAT
671789 TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
1 TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
*
671854 TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGA
66 TGCAAATGAAATTATTAAATTAATATTGTAGGTAGAAAACATGAAACACTATTAAAAAAAATTGA
671918 AACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAA
131 AACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAA
671983 TATAATAGGTAAAAATATGATATAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATA
196 TATAATAGGTAAAAATATGATATAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATA
* * *
672048 ATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCCATACTTTTTT
261 ATGTAATAGGTAGTGCTAATATTGTAAAATATCTATCCTTTTTATAAAAGTGTCCATACTTTTTT
*
672113 CACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATT
326 CACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGCGAGTTTTAAGATATTAATTTAGTAATT
*
672178 ATAGGCGTCTAATGATTTATATTTTACGTTACGATATATAT
391 ATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATAT
672219 TATTATTAAATTAAAAA
1 TATTATTAAATTAAAAA
672236 CAATAAACAT
Statistics
Matches: 1120, Mismatches: 154, Indels: 190
0.77 0.11 0.13
Matches are distributed among these distances:
429 11 0.01
430 155 0.14
431 442 0.39
432 3 0.00
433 9 0.01
434 19 0.02
435 23 0.02
436 18 0.02
437 4 0.00
438 2 0.00
439 3 0.00
440 2 0.00
446 1 0.00
447 12 0.01
448 1 0.00
449 1 0.00
450 6 0.01
451 7 0.01
452 5 0.00
453 41 0.04
454 2 0.00
455 1 0.00
456 1 0.00
457 1 0.00
458 3 0.00
460 1 0.00
461 1 0.00
463 3 0.00
464 1 0.00
465 1 0.00
466 1 0.00
467 2 0.00
468 41 0.04
469 6 0.01
470 7 0.01
471 6 0.01
472 1 0.00
473 1 0.00
474 13 0.01
475 1 0.00
481 2 0.00
482 3 0.00
483 2 0.00
484 4 0.00
485 18 0.02
486 20 0.02
487 18 0.02
488 9 0.01
489 5 0.00
490 2 0.00
491 151 0.13
492 16 0.01
493 11 0.01
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.40
Consensus pattern (431 bp):
TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
TGCAAATGAAATTATTAAATTAATATTGTAGGTAGAAAACATGAAACACTATTAAAAAAAATTGA
AACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAA
TATAATAGGTAAAAATATGATATAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATA
ATGTAATAGGTAGTGCTAATATTGTAAAATATCTATCCTTTTTATAAAAGTGTCCATACTTTTTT
CACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGCGAGTTTTAAGATATTAATTTAGTAATT
ATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATAT
Found at i:671602 original size:23 final size:23
Alignment explanation
Indices: 671572--671639 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
671562 TAAAAAAATG
671572 ATGTAATAGGTAGCGCTTATATA
1 ATGTAATAGGTAGCGCTTATATA
* *
671595 ATGTAATAGGTATCGTTTATATA
1 ATGTAATAGGTAGCGCTTATATA
* * *
671618 ATGTAATATGTAGTGGTTATAT
1 ATGTAATAGGTAGCGCTTATAT
671640 TGTAAAGTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.34, C:0.04, G:0.21, T:0.41
Consensus pattern (23 bp):
ATGTAATAGGTAGCGCTTATATA
Found at i:671794 original size:491 final size:491
Alignment explanation
Indices: 670867--671805 Score: 1709
Period size: 491 Copynumber: 1.9 Consensus size: 491
670857 CGATATATAT
*
670867 TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATTAAATAATTTTTTG
1 TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
670932 TGCAAATGAAATTATTAAATTAATATTGTAGGTAGAAAACATGAAACACTATTAAAAAAAATTGA
66 TGCAAATGAAATTATTAAATTAATATTGTAGGTAGAAAACATGAAACACTATTAAAAAAAATTGA
*
670997 AACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATTAAAAGTATGGACACTTTCAA
131 AACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAA
* * *
671062 TATAATAGGTAAAAATATGATGTAATATGTAGCGCTTATATAATGTAATATGTAGCGTTTATATA
196 TATAATAGGTAAAAAAATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATA
671127 ATGTAATAGGTAGTGCTAATATTGTAAAATATCTATCCTTTTTATAAAAGTGTCCATACTTTTTT
261 ATGTAATAGGTAGTGCTAATATTGTAAAATATCTATCCTTTTTATAAAAGTGTCCATACTTTTTT
671192 CACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGCGAGTTTTAAGATATTAATTTAGTAATT
326 CACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGCGAGTTTTAAGATATTAATTTAGTAATT
671257 ATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAATAAA
391 ATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAATAAA
671322 CATATATATTACATATTTATTATTATCTTTGGTTAA
456 CATATATATTACATATTTATTATTATCTTTGGTTAA
* *
671358 TATTGTTAAATT-TAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
1 TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
* *
671422 TGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAAATTG
66 TGCAAATGAAATTATTAAATTAATATTGTAGGTAGAAAACATGAAACACTATT-AAAAAAAATTG
671487 AAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCA
130 AAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCA
*
671552 ATATAATAGGTAAAAAAATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATAT
195 ATATAATAGGTAAAAAAATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATAT
* * * * *
671617 AATGTAATATGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTT
260 AATGTAATAGGTAGTGCTAATATTGTAAAATATCTATCCTTTTTATAAAAGTGTCCATACTTTTT
*
671682 TCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAAT
325 TCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGCGAGTTTTAAGATATTAATTTAGTAAT
*
671747 TATAGGCGTCTAATGATTTATTTTTTATGTTACGATATATATTATTATTAAATTAAAAA
390 TATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAA
671806 TTCTAAATAT
Statistics
Matches: 430, Mismatches: 17, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
490 101 0.23
491 329 0.77
ACGTcount: A:0.41, C:0.07, G:0.12, T:0.40
Consensus pattern (491 bp):
TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
TGCAAATGAAATTATTAAATTAATATTGTAGGTAGAAAACATGAAACACTATTAAAAAAAATTGA
AACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAA
TATAATAGGTAAAAAAATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATA
ATGTAATAGGTAGTGCTAATATTGTAAAATATCTATCCTTTTTATAAAAGTGTCCATACTTTTTT
CACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGCGAGTTTTAAGATATTAATTTAGTAATT
ATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAATAAA
CATATATATTACATATTTATTATTATCTTTGGTTAA
Found at i:672031 original size:23 final size:23
Alignment explanation
Indices: 672005--672069 Score: 112
Period size: 23 Copynumber: 2.8 Consensus size: 23
671995 AAATATGATA
672005 TAATAGGTAGCGCTTATATAATG
1 TAATAGGTAGCGCTTATATAATG
*
672028 TAATAGGTAGCGTTTATATAATG
1 TAATAGGTAGCGCTTATATAATG
*
672051 TAATAGGTAGTGCTTATAT
1 TAATAGGTAGCGCTTATAT
672070 TGTAAAGTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.34, C:0.06, G:0.22, T:0.38
Consensus pattern (23 bp):
TAATAGGTAGCGCTTATATAATG
Found at i:672518 original size:23 final size:23
Alignment explanation
Indices: 672487--672559 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
672477 ATAGGTAAAA
*
672487 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
672510 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
672533 ATATAATGTAATATGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
672556 ATAT
1 ATAT
672560 TGTAAAGTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:673008 original size:23 final size:23
Alignment explanation
Indices: 672977--673049 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
672967 ATAGGTAAAA
*
672977 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
673000 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
673023 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
673046 ATAT
1 ATAT
673050 TGTAAAGTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:673500 original size:23 final size:23
Alignment explanation
Indices: 673474--673538 Score: 103
Period size: 23 Copynumber: 2.8 Consensus size: 23
673464 AAATATGATG
673474 TAATAGGTAGCGCTTATATAATA
1 TAATAGGTAGCGCTTATATAATA
* *
673497 TAATAGGTAGCGTTTATATAATG
1 TAATAGGTAGCGCTTATATAATA
*
673520 TAATAGGTAGTGCTTATAT
1 TAATAGGTAGCGCTTATAT
673539 TGTAAAGTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.35, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
TAATAGGTAGCGCTTATATAATA
Found at i:673542 original size:21 final size:22
Alignment explanation
Indices: 673466--673543 Score: 95
Period size: 23 Copynumber: 3.5 Consensus size: 22
673456 ATAGGTAAAA
673466 ATATGATGTAATAGGTAGCGCTT
1 ATAT-ATGTAATAGGTAGCGCTT
* *
673489 ATATAATATAATAGGTAGCGTTT
1 ATAT-ATGTAATAGGTAGCGCTT
*
673512 ATATAATGTAATAGGTAGTGCTT
1 ATAT-ATGTAATAGGTAGCGCTT
673535 ATAT-TGTAA
1 ATATATGTAA
673544 AGTATCTATC
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
21 5 0.10
23 44 0.90
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (22 bp):
ATATATGTAATAGGTAGCGCTT
Found at i:673660 original size:489 final size:489
Alignment explanation
Indices: 671789--675402 Score: 6880
Period size: 489 Copynumber: 7.4 Consensus size: 489
671779 CGATATATAT
* * *
671789 TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
1 TATTGTTAAATT-TAAATTCTAAATATTATTTTGTAAAATATCAAAACAATCAAATAATTTTTTG
*
671854 TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAA
65 TGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAA
671919 ACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAAT
130 ACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAAT
*
671984 ATAATAGGTAAAAATATGATATAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAA
195 ATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAA
*
672049 TGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCCATACTTTTTTC
260 TGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTC
672114 ACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTA
325 ACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTA
*
672179 TAGGCGTCTAATGATTTATATTTTACGTTACGATATATATTATTATTAAATTAAAAACAATAAAC
390 TAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAATAAAC
672244 ATATATATTACATATTTATTATTATCTTTGGTTAA
455 ATATATATTACATATTTATTATTATCTTTGGTTAA
*
672279 TATCGTTAAATTTAAATTCTAAATATTATTTTGTAAAATATCAAAACAATCAAATAATTTTTTGT
1 TATTGTTAAATTTAAATTCTAAATATTATTTTGTAAAATATCAAAACAATCAAATAATTTTTTGT
672344 GTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAA
66 GTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGAA
672409 ACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAAT
130 ACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAAT
672474 ATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAA
195 ATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAA
* *
672539 TGTAATATGTAGTGCTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCCATACTTTTTTC
260 TGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTC
672604 ACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTA
325 ACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTA
672669 TAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAATAAAC
390 TAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAATAAAC
672734 ATATATATTACATATTTATTATTATCTTTGGTTAA
455 ATATATATTACATATTTATTATTATCTTTGGTTAA
672769 TATTGTTAAATTTAAATTCTAAATATTATTTTGTAAAATATCAAAACAATCAAATAATTTTTTGT
1 TATTGTTAAATTTAAATTCTAAATATTATTTTGTAAAATATCAAAACAATCAAATAATTTTTTGT
672834 GTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAA
66 GTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGAA
*
672899 ACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTTTGGACACTTTCAAT
130 ACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAAT
672964 ATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAA
195 ATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAA
673029 TGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTC
260 TGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTC
*
673094 ACTGTGAAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTA
325 ACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTA
673159 TAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAATAAAC
390 TAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAATAAAC
673224 ATATATATTACATATTTATTATTATCTTTGGTTAA
455 ATATATATTACATATTTATTATTATCTTTGGTTAA
673259 TATTGTTAAATTTAAATTCTAAATATTATTTTGTAAAATATCAAAACAATCAAATAATTTTTTGT
1 TATTGTTAAATTTAAATTCTAAATATTATTTTGTAAAATATCAAAACAATCAAATAATTTTTTGT
673324 GTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAA
66 GTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAA
673389 CATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATA
131 CATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATA
*
673454 TAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATATAATAGGTAGCGTTTATATAAT
196 TAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAAT
673519 GTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCA
261 GTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCA
673584 CTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTAT
326 CTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTAT
673649 AGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAATAAACA
391 AGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAATAAACA
673714 TATATATTACATATTTATTATTATCTTTGGTTAA
456 TATATATTACATATTTATTATTATCTTTGGTTAA
673748 TATTGTTAAATTTAAATTCTAAATATTATTTTGTAAAATATCAAAACAATCAAATAATTTTTTGT
1 TATTGTTAAATTTAAATTCTAAATATTATTTTGTAAAATATCAAAACAATCAAATAATTTTTTGT
* *
673813 GTAAATGAAATTATTAAATTAATATTGTAGGCGGAAAACATGAAACACTATTAAAAAAATTGTAA
66 GTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAA
673878 CATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATA
131 CATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATA
*
673943 TAATAGGTAAAAATATGATGTAATAGATAGCGCTTATATAATGTAATAGGTAGCGTTTATATAAT
196 TAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAAT
674008 GTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCA
261 GTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCA
674073 CTGTGG-AAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTAT
326 CTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTAT
*
674137 AGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAAAAATAAACA
391 AGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAATAAACA
674202 TATATA-T--ATATTTATTATTATCTTTGGTTAA
456 TATATATTACATATTTATTATTATCTTTGGTTAA
*
674233 TATTGTTAAATTTAAATTCTAAATATTATTTTGTAAAATATCAAAACAATTAAATAATTTTTTGT
1 TATTGTTAAATTTAAATTCTAAATATTATTTTGTAAAATATCAAAACAATCAAATAATTTTTTGT
674298 GTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAA
66 GTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGAA
674363 ACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAAT
130 ACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAAT
*
674428 ATAATAGGTAAAAATATGATGTAATAGGTAACGCTTATATAATGTAATAGGTAGCGTTTATATAA
195 ATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAA
*
674493 TGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTTCATACTTTTTTC
260 TGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTC
674558 ACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTA
325 ACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTA
*
674623 TAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAAC
390 TAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAATAAAC
*
674688 --ATACATTACATATTTATTATTATCTTTGGTTAA
455 ATATATATTACATATTTATTATTATCTTTGGTTAA
*
674721 TATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGT
1 TATTGTTAAATTTAAATTCTAAATATTATTTTGTAAAATATCAAAACAATCAAATAATTTTTTGT
674786 GTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAA
66 GTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAA
*
674851 CATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAATGTATGGACACTTTCAATA
131 CATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATA
674916 TAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAAT
196 TAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAAT
674981 GTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCA
261 GTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCA
675046 CTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTAT
326 CTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTAT
675111 AGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAATAAACA
391 AGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAATAAACA
*
675176 TATATATTACATATTTATTATTATCTTTCGTTAA
456 TATATATTACATATTTATTATTATCTTTGGTTAA
*
675210 TATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGT
1 TATTGTTAAATTTAAATTCTAAATATTATTTTGTAAAATATCAAAACAATCAAATAATTTTTTGT
* *
675275 GCAAATGAAATTATTAAATTAATATTGTAGGTAGAAAACATGAAACACTATTAAAAAAATTGAAA
66 GTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAA
* *
675340 CATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAATGTATGGACACTTTCAA
131 CATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAA
675403 CATATTATAT
Statistics
Matches: 3075, Mismatches: 41, Indels: 17
0.98 0.01 0.01
Matches are distributed among these distances:
485 143 0.05
486 211 0.07
487 454 0.15
488 267 0.09
489 1019 0.33
490 981 0.32
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.40
Consensus pattern (489 bp):
TATTGTTAAATTTAAATTCTAAATATTATTTTGTAAAATATCAAAACAATCAAATAATTTTTTGT
GTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAA
CATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATA
TAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAAT
GTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCA
CTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTAT
AGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAATAAACA
TATATATTACATATTTATTATTATCTTTGGTTAA
Found at i:673700 original size:979 final size:979
Alignment explanation
Indices: 671789--675402 Score: 6884
Period size: 979 Copynumber: 3.7 Consensus size: 979
671779 CGATATATAT
* *
671789 TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
1 TATTGTTAAATT-TAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
*
671854 TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAA
65 TGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAA
671919 ACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAAT
130 ACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAAT
*
671984 ATAATAGGTAAAAATATGATATAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAA
195 ATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAA
*
672049 TGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCCATACTTTTTTC
260 TGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTC
672114 ACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTA
325 ACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTA
*
672179 TAGGCGTCTAATGATTTATATTTTACGTTACGATATATATTATTATTAAATTAAAAACAATAAAC
390 TAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAATAAAC
*
672244 ATATATATTACATATTTATTATTATCTTTGGTTAATATCGTTAAATTTAAATTCTAAATATTATT
455 ATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATT
672309 TTGTAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAG
520 TTGTAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAG
672374 GTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTAT
585 GTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTAT
672439 CGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTA
650 CGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTA
*
672504 GCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATATGTAGTGCTTATATTGTAAAGTA
715 GCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTA
*
672569 TCTATCATTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCT
780 TCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCT
672634 TTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTA
845 TTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTA
672699 CGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTTG
910 CGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTTG
672764 GTTAA
975 GTTAA
*
672769 TATTGTTAAATTTAAATTCTAAATATTATTTTGTAAAATATCAAAACAATCAAATAATTTTTTGT
1 TATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGT
672834 GTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAA
66 GTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGAA
*
672899 ACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTTTGGACACTTTCAAT
130 ACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAAT
672964 ATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAA
195 ATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAA
673029 TGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTC
260 TGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTC
*
673094 ACTGTGAAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTA
325 ACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTA
673159 TAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAATAAAC
390 TAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAATAAAC
673224 ATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATT
455 ATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATT
673289 TTGTAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAG
520 TTGTAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAG
673354 GTGGAAAACATGAAACACTATT-AAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTAT
585 GTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTAT
673418 CGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTA
650 CGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTA
*
673483 GCGCTTATATAATATAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTA
715 GCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTA
673548 TCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCT
780 TCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCT
673613 TTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTA
845 TTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTA
673678 CGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTTG
910 CGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTTG
673743 GTTAA
975 GTTAA
*
673748 TATTGTTAAATTTAAATTCTAAATATTATTTTGTAAAATATCAAAACAATCAAATAATTTTTTGT
1 TATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGT
* *
673813 GTAAATGAAATTATTAAATTAATATTGTAGGCGGAAAACATGAAACACTATTAAAAAAATTGTAA
66 GTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAA
673878 CATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATA
131 CATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATA
*
673943 TAATAGGTAAAAATATGATGTAATAGATAGCGCTTATATAATGTAATAGGTAGCGTTTATATAAT
196 TAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAAT
674008 GTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCA
261 GTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCA
674073 CTGTGG-AAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTAT
326 CTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTAT
*
674137 AGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAAAAATAAACA
391 AGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAATAAACA
674202 TATATA-T--ATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTT
456 TATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTT
*
674264 TGTAAAATATCAAAACAATTAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGG
521 TGTAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGG
674329 TGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATC
586 TGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATC
*
674394 GATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAA
651 GATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAG
674459 CGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTAT
716 CGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTAT
*
674524 CTATCCTTTTTATAAAAGTGTTCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTT
781 CTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTT
674589 TTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTAC
846 TTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTAC
* *
674654 GGTATATATTATTATTAAATTAAAAACAATAAAC--ATACATTACATATTTATTATTATCTTTGG
911 GATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTTGG
674717 TTAA
976 TTAA
674721 TATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGT
1 TATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGT
674786 GTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAA
66 GTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAA
*
674851 CATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAATGTATGGACACTTTCAATA
131 CATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATA
674916 TAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAAT
196 TAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAAT
674981 GTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCA
261 GTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCA
675046 CTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTAT
326 CTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTAT
675111 AGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAATAAACA
391 AGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAATAAACA
*
675176 TATATATTACATATTTATTATTATCTTTCGTTAATATTGTTAAATTTAAATTCTAAATATTATTT
456 TATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTT
* *
675241 TATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGG
521 TGTAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGG
* *
675306 TAGAAAACATGAAACACTATT-AAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATC
586 TGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATC
*
675370 GATCCTTTTTATAAAATGTATGGACACTTTCAA
651 GATCCTTTTTATAAAAAGTATGGACACTTTCAA
675403 CATATTATAT
Statistics
Matches: 2590, Mismatches: 38, Indels: 16
0.98 0.01 0.01
Matches are distributed among these distances:
973 358 0.14
974 268 0.10
975 334 0.13
976 75 0.03
977 264 0.10
978 210 0.08
979 587 0.23
980 494 0.19
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.40
Consensus pattern (979 bp):
TATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGT
GTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAA
CATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATA
TAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAAT
GTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCA
CTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTAT
AGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAATAAACA
TATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTT
TGTAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGG
TGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATC
GATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAG
CGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTAT
CTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTT
TTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTAC
GATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTTGG
TTAA
Found at i:673986 original size:23 final size:23
Alignment explanation
Indices: 673955--674027 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
673945 ATAGGTAAAA
* *
673955 ATATGATGTAATAGATAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
673978 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
674001 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
674024 ATAT
1 ATAT
674028 TGTAAAGTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:674472 original size:23 final size:23
Alignment explanation
Indices: 674441--674513 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
674431 ATAGGTAAAA
* *
674441 ATATGATGTAATAGGTAACGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
674464 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
674487 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
674510 ATAT
1 ATAT
674514 TGTAAAGTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:674959 original size:23 final size:23
Alignment explanation
Indices: 674928--675000 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
674918 ATAGGTAAAA
*
674928 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
674951 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
674974 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
674997 ATAT
1 ATAT
675001 TGTAAAGTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:679150 original size:26 final size:28
Alignment explanation
Indices: 679129--679187 Score: 73
Period size: 31 Copynumber: 2.0 Consensus size: 28
679119 TAAGCTCGCG
*
679129 AGTTTTCGAGTCGAGTCGAGCTTCATTTCAA
1 AGTTTTCGAGTCGAGTCGAGC-TC--TGCAA
*
679160 AGTTTTCGAGTCGAGTCGAGCTCAGCAA
1 AGTTTTCGAGTCGAGTCGAGCTCTGCAA
679188 TACTCGAGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 3 0.12
30 2 0.08
31 21 0.81
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (28 bp):
AGTTTTCGAGTCGAGTCGAGCTCTGCAA
Found at i:680227 original size:58 final size:58
Alignment explanation
Indices: 680124--680238 Score: 162
Period size: 58 Copynumber: 2.0 Consensus size: 58
680114 ACATAACTTG
*
680124 GATTCTAAAATAATATTTAATATCATCTTATCATAGGTAGATTAAGCATTTCAGTGTT
1 GATTCTAAAATAATATTTAATATCATCTTATCATAGGAAGATTAAGCATTTCAGTGTT
* * *
680182 GATTCTAAAATAATATTTAATATCATTTTA-CAATGGGCAAG-TTAAGCGTTTCAGTGT
1 GATTCTAAAATAATATTTAATATCATCTTATC-ATAGG-AAGATTAAGCATTTCAGTGT
680239 CGATAGATAT
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
57 1 0.02
58 48 0.94
59 2 0.04
ACGTcount: A:0.36, C:0.10, G:0.14, T:0.40
Consensus pattern (58 bp):
GATTCTAAAATAATATTTAATATCATCTTATCATAGGAAGATTAAGCATTTCAGTGTT
Found at i:690614 original size:21 final size:21
Alignment explanation
Indices: 690568--690623 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
690558 GATTCTGACT
690568 ATCGCATTGCGA-TTTCACAA
1 ATCGCATTGCGATTTTCACAA
*
690588 ATTCGCGTTGCGATTTTC-CTAA
1 A-TCGCATTGCGATTTTCAC-AA
*
690610 ATCGCAATGCGATT
1 ATCGCATTGCGATT
690624 ACGTAAATCG
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 1 0.03
21 22 0.73
22 7 0.23
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.34
Consensus pattern (21 bp):
ATCGCATTGCGATTTTCACAA
Found at i:691257 original size:20 final size:20
Alignment explanation
Indices: 691232--691278 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
691222 CAACGAGTGA
691232 ATCGCAATGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
**
691252 ATCGCAATGCGAATTTGACT
1 ATCGCAATGCGAAAATGACT
691272 ATCGCAA
1 ATCGCAA
691279 CGAGAGAATC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.23
Consensus pattern (20 bp):
ATCGCAATGCGAAAATGACT
Found at i:691348 original size:20 final size:20
Alignment explanation
Indices: 691303--691357 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
691293 TGCAATTTTC
*
691303 ATTTCGCGTTGCGATAGTCA
1 ATTTCGCGTTGCGATAGACA
*
691323 AATTCGCGTTGCGATAGACA
1 ATTTCGCGTTGCGATAGACA
* *
691343 TTTTCGTGTTGCGAT
1 ATTTCGCGTTGCGAT
691358 TTTCATTTTC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.36
Consensus pattern (20 bp):
ATTTCGCGTTGCGATAGACA
Found at i:691364 original size:20 final size:20
Alignment explanation
Indices: 691341--691379 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
691331 TTGCGATAGA
*
691341 CATTTTCGTGTTGCGATTTT
1 CATTTTCGTATTGCGATTTT
*
691361 CATTTTCGTATTGTGATTT
1 CATTTTCGTATTGCGATTT
691380 AAAGTTTCAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.13, C:0.13, G:0.18, T:0.56
Consensus pattern (20 bp):
CATTTTCGTATTGCGATTTT
Found at i:693289 original size:20 final size:20
Alignment explanation
Indices: 693264--693352 Score: 109
Period size: 20 Copynumber: 4.8 Consensus size: 20
693254 AGAATAGTTT
693264 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
693284 ACTATCGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
693304 ACTATCGCAAT--G-AGA-G
1 ACTATCGCAATGCGAAAATG
693320 A--ATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
693338 ACTATCGCATTGCGA
1 ACTATCGCAATGCGA
693353 TAGTCATTTT
Statistics
Matches: 58, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
14 8 0.14
16 3 0.05
17 4 0.07
18 3 0.05
20 40 0.69
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.19
Consensus pattern (20 bp):
ACTATCGCAATGCGAAAATG
Found at i:693948 original size:21 final size:20
Alignment explanation
Indices: 693857--693961 Score: 68
Period size: 21 Copynumber: 5.0 Consensus size: 20
693847 GACTCACCTG
693857 TCATCGTTCAAGAGG-CCTCC
1 TCATCGTTCAAGAGGCCCT-C
* *
693877 CCTATCGTTCAAGAGGCCCTTA
1 TC-ATCGTTCAAGAGGCCC-TC
** *
693899 TCATCCCTCAAGAGTCCCCTC
1 TCATCGTTCAAGAG-GCCCTC
* * *
693920 CCACCGTTCAAGAGGCCACTG
1 TCATCGTTCAAGAGGCC-CTC
*
693941 TCATCGTTGAAGAGGTCCCTC
1 TCATCGTTCAAGAGG-CCCTC
693962 CCAACATTCT
Statistics
Matches: 62, Mismatches: 17, Indels: 11
0.69 0.19 0.12
Matches are distributed among these distances:
20 3 0.05
21 50 0.81
22 8 0.13
23 1 0.02
ACGTcount: A:0.21, C:0.36, G:0.19, T:0.24
Consensus pattern (20 bp):
TCATCGTTCAAGAGGCCCTC
Found at i:693954 original size:42 final size:41
Alignment explanation
Indices: 693853--693964 Score: 111
Period size: 42 Copynumber: 2.7 Consensus size: 41
693843 GCCCGACTCA
* * *
693853 CCTGTCATCGTTCAAGAGGCCTCC-CCTATCGTTCAAGAGGC
1 CCTGTCATCGTTCAAGAGTCC-CCTCCCACCGTTCAAGAGGC
* **
693894 CCTTATCATCCCTCAAGAGTCCCCTCCCACCGTTCAAGAGGC
1 CC-TGTCATCGTTCAAGAGTCCCCTCCCACCGTTCAAGAGGC
*
693936 CACTGTCATCGTTGAAGAGGT-CCCTCCCA
1 C-CTGTCATCGTTCAAGA-GTCCCCTCCCA
693965 ACATTCTAGA
Statistics
Matches: 57, Mismatches: 10, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
41 4 0.07
42 50 0.88
43 3 0.05
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.23
Consensus pattern (41 bp):
CCTGTCATCGTTCAAGAGTCCCCTCCCACCGTTCAAGAGGC
Found at i:695335 original size:14 final size:14
Alignment explanation
Indices: 695316--695351 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
695306 ATTGTTTAAT
695316 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
695330 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
695344 TGATTTGT
1 TGATTTGT
695352 TTAATTCATG
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:695490 original size:33 final size:34
Alignment explanation
Indices: 695453--695528 Score: 118
Period size: 33 Copynumber: 2.3 Consensus size: 34
695443 AAAACAGACT
**
695453 ATCGCAACGAGAGAATTGCAATGCG-AAATGAAA
1 ATCGCAACGAGAGAATCACAATGCGAAAATGAAA
*
695486 ATCGCAACGAGTGAATCACAATGCGAAAATGAAA
1 ATCGCAACGAGAGAATCACAATGCGAAAATGAAA
695520 ATCGCAACG
1 ATCGCAACG
695529 CGAAACTAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
33 22 0.56
34 17 0.44
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.14
Consensus pattern (34 bp):
ATCGCAACGAGAGAATCACAATGCGAAAATGAAA
Found at i:695731 original size:19 final size:19
Alignment explanation
Indices: 695707--695743 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
695697 CGAGAGAATC
695707 GCAATGCGAAATGAAAATT
1 GCAATGCGAAATGAAAATT
695726 GCAATGCGAAATGAAAAT
1 GCAATGCGAAATGAAAAT
695744 CTCAACAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.49, C:0.11, G:0.22, T:0.19
Consensus pattern (19 bp):
GCAATGCGAAATGAAAATT
Found at i:695837 original size:33 final size:33
Alignment explanation
Indices: 695779--695874 Score: 120
Period size: 33 Copynumber: 2.8 Consensus size: 33
695769 ACTAATTTCG
*
695779 CGTTGCGATTTTCATTTTCGTATTGCGATTCACT
1 CGTTGCGATTTTCA-TTTCGCATTGCGATTCACT
*
695813 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCACT
* ** *
695846 CATTGCGATAGTCATTTCCGCGTTGCGAT
1 CGTTGCGATTTTCATTT-CGCATTGCGAT
695875 AGTCAATTCC
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
33 31 0.56
34 24 0.44
ACGTcount: A:0.15, C:0.23, G:0.20, T:0.43
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCACT
Found at i:695873 original size:20 final size:20
Alignment explanation
Indices: 695848--695934 Score: 122
Period size: 20 Copynumber: 4.3 Consensus size: 20
695838 GATTCTCTCA
695848 TTGCGATAGTCATTTCCGCG
1 TTGCGATAGTCATTTCCGCG
* *
695868 TTGCGATAGTCAATTCCGCA
1 TTGCGATAGTCATTTCCGCG
* *
695888 CTGCGATAGTCATTTCCGTG
1 TTGCGATAGTCATTTCCGCG
695908 TTGCGATAGTCATATT-CGCG
1 TTGCGATAGTCAT-TTCCGCG
695928 TTGCGAT
1 TTGCGAT
695935 TTCCGCGTTG
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
20 56 0.97
21 2 0.03
ACGTcount: A:0.18, C:0.23, G:0.24, T:0.34
Consensus pattern (20 bp):
TTGCGATAGTCATTTCCGCG
Found at i:695933 original size:40 final size:40
Alignment explanation
Indices: 695846--695934 Score: 135
Period size: 40 Copynumber: 2.2 Consensus size: 40
695836 GCGATTCTCT
695846 CATTGCGATAGTCATTTCCGCGTTGCGATAGTCAATTCCG
1 CATTGCGATAGTCATTTCCGCGTTGCGATAGTCAATTCCG
* *
695886 CACTGCGATAGTCATTTCCGTGTTGCGATAGTCATATT-CG
1 CATTGCGATAGTCATTTCCGCGTTGCGATAGTCA-ATTCCG
*
695926 CGTTGCGAT
1 CATTGCGAT
695935 TTCCGCGTTG
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
40 41 0.93
41 3 0.07
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.34
Consensus pattern (40 bp):
CATTGCGATAGTCATTTCCGCGTTGCGATAGTCAATTCCG
Found at i:698436 original size:24 final size:24
Alignment explanation
Indices: 698385--698436 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
698375 ATCCAAGTAT
** *
698385 TGACCAAGATCAAAGTCCGGGTAT
1 TGACCAAGATCAAAGTCCGAATAC
* *
698409 TGACCAAGATCAAATTTCGAATAC
1 TGACCAAGATCAAAGTCCGAATAC
698433 TGAC
1 TGAC
698437 TAGTACTCAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (24 bp):
TGACCAAGATCAAAGTCCGAATAC
Found at i:699255 original size:20 final size:20
Alignment explanation
Indices: 699232--699281 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
699222 GAGAATCTCG
699232 TTGCGATTTACAGATTCGCA
1 TTGCGATTTACAGATTCGCA
699252 TTGCGATTTACAGATTCGCA
1 TTGCGATTTACAGATTCGCA
699272 TTGCGATTTA
1 TTGCGATTTA
699282 GGAAAATCGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.38
Consensus pattern (20 bp):
TTGCGATTTACAGATTCGCA
Found at i:699307 original size:22 final size:21
Alignment explanation
Indices: 699277--699319 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
699267 TCGCATTGCG
699277 ATTTAGGAAAATCGCAACGCGA
1 ATTTAGG-AAATCGCAACGCGA
* *
699299 ATTTGGGAAATCGCAATGCGA
1 ATTTAGGAAATCGCAACGCGA
699320 TAGTCAGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.37, C:0.16, G:0.26, T:0.21
Consensus pattern (21 bp):
ATTTAGGAAATCGCAACGCGA
Found at i:704889 original size:27 final size:27
Alignment explanation
Indices: 704851--704904 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
704841 GGCAGTCCAG
704851 GAGTCTTGTATGCCGAAGGATCAGACA
1 GAGTCTTGTATGCCGAAGGATCAGACA
704878 GAGTCTTGTATGCCGAAGGATCAGACA
1 GAGTCTTGTATGCCGAAGGATCAGACA
704905 AACTGACATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.30, C:0.19, G:0.30, T:0.22
Consensus pattern (27 bp):
GAGTCTTGTATGCCGAAGGATCAGACA
Found at i:708306 original size:30 final size:30
Alignment explanation
Indices: 708282--708351 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 30
708272 TAATTTTACG
708282 TCTAAATTTTAAATAAATTATAATTTAATC
1 TCTAAATTTTAAATAAATTATAATTTAATC
* * * *
708312 TTTAAATTTTATATAAA-TATCAATTGAGTC
1 TCTAAATTTTAAATAAATTAT-AATTTAATC
*
708342 TCTAATTTTT
1 TCTAAATTTT
708352 TGGTAAAATA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
29 3 0.09
30 30 0.91
ACGTcount: A:0.40, C:0.07, G:0.03, T:0.50
Consensus pattern (30 bp):
TCTAAATTTTAAATAAATTATAATTTAATC
Found at i:708895 original size:24 final size:25
Alignment explanation
Indices: 708868--708923 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
708858 TATGTTTTCG
*
708868 TCCT-TAAAATTTTATAAATTTATC
1 TCCTCTAAAATTTTAGAAATTTATC
*
708892 TCCTCTAAAATTTTAGAAGTTTAT-
1 TCCTCTAAAATTTTAGAAATTTATC
*
708916 TCCCCTAA
1 TCCTCTAA
708924 TATAAAATCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 11 0.39
25 17 0.61
ACGTcount: A:0.34, C:0.18, G:0.04, T:0.45
Consensus pattern (25 bp):
TCCTCTAAAATTTTAGAAATTTATC
Found at i:722878 original size:15 final size:15
Alignment explanation
Indices: 722858--722888 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
722848 CAACAGATAA
722858 AATTTTTATATAAAT
1 AATTTTTATATAAAT
*
722873 AATTTTTATTTAAAT
1 AATTTTTATATAAAT
722888 A
1 A
722889 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:723231 original size:37 final size:39
Alignment explanation
Indices: 723139--723222 Score: 109
Period size: 39 Copynumber: 2.2 Consensus size: 39
723129 CCCTATCAAC
** *
723139 TATTCATTTCATATTTTGAAAAAATAATTTCTCCAAACA
1 TATTCATTTCACCTATTGAAAAAATAATTTCTCCAAACA
* *
723178 TATTCATTTCACCTATTGAGAAAATAATTTGTCC-AACA
1 TATTCATTTCACCTATTGAAAAAATAATTTCTCCAAACA
723216 T-TTCATT
1 TATTCATT
723223 CGCGCTATTT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
37 6 0.15
38 5 0.12
39 29 0.73
ACGTcount: A:0.37, C:0.17, G:0.05, T:0.42
Consensus pattern (39 bp):
TATTCATTTCACCTATTGAAAAAATAATTTCTCCAAACA
Found at i:734119 original size:129 final size:130
Alignment explanation
Indices: 733933--734183 Score: 432
Period size: 129 Copynumber: 1.9 Consensus size: 130
733923 TAGTAACTTG
* *
733933 AATGATAATATAATGTTATTTTAATAGTGTTTTAAGTATTATTGGTTCGAAATTATCCTTCAAAA
1 AATGATAATATAATATTATTTTAATAGTGGTTTAAGTATTATTGGTTCGAAATTATCCTTCAAAA
*
733998 TATAAAAATTTTACAAAAAGGGGTAAAAACTTTACATGAGTCAAATCACTTGAAATTCTAATTTT
66 TATAAAAATTTTACAAAAAGGGGGAAAAACTTTACATGAGTCAAATCACTTGAAATTCTAATTTT
* * *
734063 AATGATAATATAATATTGTTTTAATAG-GGTTTAAGTATTATTTGTTTGAAATTATCCTTCAAAA
1 AATGATAATATAATATTATTTTAATAGTGGTTTAAGTATTATTGGTTCGAAATTATCCTTCAAAA
*
734127 TATAAAAATTTTATAAAAAGGGGGAAAAACTTTACATGAGTCAAATCACTTGAAATT
66 TATAAAAATTTTACAAAAAGGGGGAAAAACTTTACATGAGTCAAATCACTTGAAATT
734184 ATTAAAAACA
Statistics
Matches: 114, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
129 89 0.78
130 25 0.22
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.39
Consensus pattern (130 bp):
AATGATAATATAATATTATTTTAATAGTGGTTTAAGTATTATTGGTTCGAAATTATCCTTCAAAA
TATAAAAATTTTACAAAAAGGGGGAAAAACTTTACATGAGTCAAATCACTTGAAATTCTAATTTT
Found at i:736717 original size:47 final size:48
Alignment explanation
Indices: 736660--736750 Score: 139
Period size: 47 Copynumber: 1.9 Consensus size: 48
736650 TAGTAAGTGA
* * * *
736660 TAATATATGTTTAAATGATTTT-AATAATTTGAGAGTGGTTTTATAGG
1 TAATACATGTTTAAAAGATTTTCAATAATTTGAGAATGGATTTATAGG
736707 TAATACATGTTTAAAAGATTTTCAATAATTTGAGAATGGATTTA
1 TAATACATGTTTAAAAGATTTTCAATAATTTGAGAATGGATTTA
736751 AATGATTGGA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
47 20 0.51
48 19 0.49
ACGTcount: A:0.37, C:0.02, G:0.16, T:0.44
Consensus pattern (48 bp):
TAATACATGTTTAAAAGATTTTCAATAATTTGAGAATGGATTTATAGG
Found at i:742621 original size:32 final size:32
Alignment explanation
Indices: 742580--742823 Score: 325
Period size: 32 Copynumber: 7.7 Consensus size: 32
742570 GAGGGTTTAT
*
742580 CTATGTCTTTCGGGACATATGGATAGTATTAC
1 CTATGTCTTTCGGGACATATGGACAGTATTAC
*
742612 CTATGTCTTTCGGGATATATGGACAGTATTAC
1 CTATGTCTTTCGGGACATATGGACAGTATTAC
*
742644 CTATGTCTTTCGGGACATATGGACAATATTAC
1 CTATGTCTTTCGGGACATATGGACAGTATTAC
*
742676 CTATGTCTTTCGGGACATATGGGCAGTATTAC
1 CTATGTCTTTCGGGACATATGGACAGTATTAC
* *
742708 CTATGCCTTTCGGGACATATGGACAATATTAC
1 CTATGTCTTTCGGGACATATGGACAGTATTAC
** * * *
742740 CTATGTCTTTTAGAACATATGAACAAG-ATTGC
1 CTATGTCTTTCGGGACATATGGAC-AGTATTAC
742772 CTATGT-TCTTCGGGACATATGGACAGT-TTAC
1 CTATGTCT-TTCGGGACATATGGACAGTATTAC
*
742803 CTATGT-TCTCCGGGACATATG
1 CTATGTCT-TTCGGGACATATG
742824 AAAAGATTAT
Statistics
Matches: 187, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
31 26 0.14
32 160 0.86
33 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (32 bp):
CTATGTCTTTCGGGACATATGGACAGTATTAC
Found at i:743657 original size:19 final size:19
Alignment explanation
Indices: 743611--743661 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 19
743601 TATTATTCAC
743611 ATTATTGTTCATACAATAT
1 ATTATTGTTCATACAATAT
* * **
743630 AATACTGTTCATACTGTAT
1 ATTATTGTTCATACAATAT
743649 ATTATTGTTCATA
1 ATTATTGTTCATA
743662 AAAACGTCTT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.33, C:0.12, G:0.08, T:0.47
Consensus pattern (19 bp):
ATTATTGTTCATACAATAT
Found at i:749363 original size:2 final size:2
Alignment explanation
Indices: 749356--749405 Score: 75
Period size: 2 Copynumber: 25.5 Consensus size: 2
749346 TTTATTTTAT
* *
749356 TA TA TA TA TA TA TA TA TA TA TA TA TT TT TA T- 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
749397 TA TA TA TA T
1 TA TA TA TA T
749406 GTATGTAGTA
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 44 0.98
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (2 bp):
TA
Found at i:749571 original size:81 final size:76
Alignment explanation
Indices: 749486--749845 Score: 326
Period size: 74 Copynumber: 4.9 Consensus size: 76
749476 CGAAAATAAG
* * *
749486 TATATATTATATAGTTTTTTAAAACATTTTTAATATATATATACATAATATATAGTTTTGAAAAA
1 TATATATTATATAG-TTTTTAAAACATTTTTAA-A-ATATATATATATTATATAGTTTT-TAAAA
*
749551 CATTTTTGAAAACATT
62 CATTTTTGAAAA-ATA
* *
749567 TATATATTATATAGTTTTTAAAACATTTTTGAAAATATTTATATATTGTATAGTTTTTAAAACAT
1 TATATATTATATAGTTTTTAAAACATTTTT-AAAATATATATATATTATATAGTTTTTAAAACAT
*
749632 TTTT--AAAGTA
65 TTTTGAAAAATA
* * * *
749642 TATATAATATATAGTTTTCAAAACATTTTGAAAACATATATATATTATATAGTTTTTAAAACA--
1 TATATATTATATAGTTTTTAAAACATTTTTAAAATATATATATATTATATAGTTTTTAAAACATT
749705 -TT----AATA
66 TTTGAAAAATA
* * *
749711 TATA-A-TATATAATTTTTAAAGTCATTTTGAAAACT-TATATA-A-TATATAGTTTTTAAAACA
1 TATATATTATATAGTTTTTAAA-ACATTTTTAAAA-TATATATATATTATATAGTTTTTAAAACA
*
749771 TTTATG-AAAATA
64 TTTTTGAAAAATA
* *** *
749783 AATATATTATATAGTTTTT-AATTTTTTTTGAAAACATATATA-A-TATATA-TTTTTAAAACAT
1 TATATATTATATAGTTTTTAAAACATTTTT-AAAATATATATATATTATATAGTTTTTAAAACAT
749844 TT
65 TT
749846 ATTCTTTTAT
Statistics
Matches: 241, Mismatches: 25, Indels: 35
0.80 0.08 0.12
Matches are distributed among these distances:
66 18 0.07
67 14 0.06
68 18 0.07
69 8 0.03
71 2 0.01
72 26 0.11
73 20 0.08
74 41 0.17
75 28 0.12
76 3 0.01
78 11 0.05
79 19 0.08
80 17 0.07
81 16 0.07
ACGTcount: A:0.43, C:0.04, G:0.05, T:0.47
Consensus pattern (76 bp):
TATATATTATATAGTTTTTAAAACATTTTTAAAATATATATATATTATATAGTTTTTAAAACATT
TTTGAAAAATA
Found at i:749691 original size:38 final size:38
Alignment explanation
Indices: 749486--749845 Score: 333
Period size: 36 Copynumber: 9.7 Consensus size: 38
749476 CGAAAATAAG
* *
749486 TATATATTATATAGTTTTTTAAAACATTTTTAATATATATA
1 TATATATTATATAG-TTTTTAAAACATTTTGAA-A-ACATA
* * * *
749527 TACATAATATATAGTTTTGAAAAACATTTTTGAAAACATT
1 TATATATTATATAGTTTT-TAAAACA-TTTTGAAAACATA
* *
749567 TATATATTATATAGTTTTTAAAACATTTTTGAAAATATT
1 TATATATTATATAGTTTTTAAAACA-TTTTGAAAACATA
* * *
749606 TATATATTGTATAGTTTTTAAAACATTTT-TAAA-GTA
1 TATATATTATATAGTTTTTAAAACATTTTGAAAACATA
* *
749642 TATATAATATATAGTTTTCAAAACATTTTGAAAACATA
1 TATATATTATATAGTTTTTAAAACATTTTGAAAACATA
749680 TATATATTATATAGTTTTTAAAACA--TT----A-ATA
1 TATATATTATATAGTTTTTAAAACATTTTGAAAACATA
* *
749711 TATA-A-TATATAATTTTTAAAGTCATTTTGAAAAC-T-
1 TATATATTATATAGTTTTTAAA-ACATTTTGAAAACATA
*
749746 TATATAATATATAGTTTTTAAAACATTTATG-AAA-ATA
1 TATATATTATATAGTTTTTAAAACATTT-TGAAAACATA
* ****
749783 AATATATTATATAGTTTTTAATTTTTTTTGAAAACATA
1 TATATATTATATAGTTTTTAAAACATTTTGAAAACATA
749821 TATA-A-TATATA-TTTTTAAAACATTT
1 TATATATTATATAGTTTTTAAAACATTT
749846 ATTCTTTTAT
Statistics
Matches: 264, Mismatches: 36, Indels: 44
0.77 0.10 0.13
Matches are distributed among these distances:
29 14 0.05
30 3 0.01
31 7 0.03
32 3 0.01
35 14 0.05
36 49 0.19
37 48 0.18
38 35 0.13
39 43 0.16
40 23 0.09
41 19 0.07
42 6 0.02
ACGTcount: A:0.43, C:0.04, G:0.05, T:0.47
Consensus pattern (38 bp):
TATATATTATATAGTTTTTAAAACATTTTGAAAACATA
Found at i:749711 original size:29 final size:27
Alignment explanation
Indices: 749666--749730 Score: 85
Period size: 29 Copynumber: 2.3 Consensus size: 27
749656 TTTTCAAAAC
* *
749666 ATTTTGAAAACATATATATATTATATA
1 ATTTTTAAAACATATATATAATATATA
*
749693 GTTTTTAAAACATTAATATATAATATATA
1 ATTTTTAAAACA-T-ATATATAATATATA
749722 ATTTTTAAA
1 ATTTTTAAA
749731 GTCATTTTGA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 10 0.31
28 1 0.03
29 21 0.66
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (27 bp):
ATTTTTAAAACATATATATAATATATA
Done.