Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001470.1 Hibiscus syriacus cultivar Beakdansim tig00002847_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: 1178067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 7
Found at i:611090 original size:20 final size:20
Alignment explanation
Indices: 611047--611090 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
611037 CGATAATCAT
* * *
611047 TTTCTTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTTAAG
611067 TTTCGTGTTGCGATTTTAAG
1 TTTCGTGTTGCGATTTTAAG
611087 TTTC
1 TTTC
611091 AGAAACTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.11, C:0.14, G:0.18, T:0.57
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTTAAG
Found at i:612637 original size:21 final size:21
Alignment explanation
Indices: 612589--612638 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
612579 GTTAGGGGAG
* *
612589 TTACGTGATGAGGTCAATGCC
1 TTACGTGAGGAGGTCAATACC
* * *
612610 TTGCGTGAGGAGGTCAGTACT
1 TTACGTGAGGAGGTCAATACC
612631 TTACGTGA
1 TTACGTGA
612639 TGACAATGGT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.22, C:0.16, G:0.32, T:0.30
Consensus pattern (21 bp):
TTACGTGAGGAGGTCAATACC
Found at i:613111 original size:20 final size:19
Alignment explanation
Indices: 613070--613229 Score: 97
Period size: 20 Copynumber: 8.6 Consensus size: 19
613060 AGAAGAATAG
* *
613070 TCGCAACACGAAAATGATTA
1 TCGCAACGCG-AAATGACTA
*
613090 TCGCAACGCGAATTTGACTA
1 TCGCAACGCGAA-ATGACTA
* *
613110 TCACAAAGCG--AT-A--A
1 TCGCAACGCGAAATGACTA
*
613124 TCGCAATGCGAAAATGACTA
1 TCGCAACGCG-AAATGACTA
*
613144 TCGCAACGTGGAAATGACTA
1 TCGCAACG-CGAAATGACTA
*
613164 TCGCAACGCGAATTTGACTA
1 TCGCAACGCGAA-ATGACTA
*
613184 TCGCAACG-G-GAT-A--A
1 TCGCAACGCGAAATGACTA
*
613198 TCGCAATGCGAAAATGACTA
1 TCGCAACGCG-AAATGACTA
*
613218 TCGTAACGCGAA
1 TCGCAACGCGAA
613230 TTTAGTTTCG
Statistics
Matches: 107, Mismatches: 18, Indels: 31
0.69 0.12 0.20
Matches are distributed among these distances:
14 17 0.16
15 1 0.01
16 2 0.02
17 6 0.06
18 2 0.02
19 8 0.07
20 70 0.65
21 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.21, T:0.20
Consensus pattern (19 bp):
TCGCAACGCGAAATGACTA
Found at i:613135 original size:34 final size:34
Alignment explanation
Indices: 613089--613225 Score: 130
Period size: 34 Copynumber: 3.9 Consensus size: 34
613079 GAAAATGATT
** * * *
613089 ATCGCAACGCGAATTTGACTATCACAAAGCGATA
1 ATCGCAACGCGAAAATGACTATCGCAACGGGATA
*
613123 ATCGCAATGCGAAAATGACTATCGCAACGTGGAAATGA
1 ATCGCAACGCGAAAATGACTATCGCAACG-GG--AT-A
**
613161 CTATCGCAACGCGAATTTGACTATCGCAACGGGATA
1 --ATCGCAACGCGAAAATGACTATCGCAACGGGATA
* *
613197 ATCGCAATGCGAAAATGACTATCGTAACG
1 ATCGCAACGCGAAAATGACTATCGCAACG
613226 CGAATTTAGT
Statistics
Matches: 84, Mismatches: 13, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
34 49 0.58
35 1 0.01
36 1 0.01
37 4 0.05
38 1 0.01
39 2 0.02
40 26 0.31
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.20
Consensus pattern (34 bp):
ATCGCAACGCGAAAATGACTATCGCAACGGGATA
Found at i:613182 original size:40 final size:38
Alignment explanation
Indices: 613070--613229 Score: 120
Period size: 34 Copynumber: 4.3 Consensus size: 38
613060 AGAAGAATAG
*
613070 TCGCAACACGAAAATGATTATCGCAACGCGAATTTGACTA
1 TCGCAACGCG-AAATGA-TATCGCAACGCGAATTTGACTA
* * * **
613110 TCACAAAGCG--AT-A-ATCGCAATGCGAAAATGACTA
1 TCGCAACGCGAAATGATATCGCAACGCGAATTTGACTA
*
613144 TCGCAACGTGGAAATGACTATCGCAACGCGAATTTGACTA
1 TCGCAACG-CGAAATGA-TATCGCAACGCGAATTTGACTA
* * **
613184 TCGCAACG-G-GAT-A-ATCGCAATGCGAAAATGACTA
1 TCGCAACGCGAAATGATATCGCAACGCGAATTTGACTA
*
613218 TCGTAACGCGAA
1 TCGCAACGCGAA
613230 TTTAGTTTCG
Statistics
Matches: 94, Mismatches: 18, Indels: 20
0.71 0.14 0.15
Matches are distributed among these distances:
34 49 0.52
35 2 0.02
36 2 0.02
37 6 0.06
38 2 0.02
40 33 0.35
ACGTcount: A:0.38, C:0.22, G:0.21, T:0.20
Consensus pattern (38 bp):
TCGCAACGCGAAATGATATCGCAACGCGAATTTGACTA
Found at i:613197 original size:74 final size:74
Alignment explanation
Indices: 613081--613225 Score: 245
Period size: 74 Copynumber: 2.0 Consensus size: 74
613071 CGCAACACGA
*
613081 AAATGATTATCGCAACGCGAATTTGACTATCACAAAGCGATAATCGCAATGCGAAAATGACTATC
1 AAATGACTATCGCAACGCGAATTTGACTATCACAAAGCGATAATCGCAATGCGAAAATGACTATC
613146 GCAACGTGG
66 GCAACGTGG
* * *
613155 AAATGACTATCGCAACGCGAATTTGACTATCGCAACGGGATAATCGCAATGCGAAAATGACTATC
1 AAATGACTATCGCAACGCGAATTTGACTATCACAAAGCGATAATCGCAATGCGAAAATGACTATC
*
613220 GTAACG
66 GCAACG
613226 CGAATTTAGT
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
74 66 1.00
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (74 bp):
AAATGACTATCGCAACGCGAATTTGACTATCACAAAGCGATAATCGCAATGCGAAAATGACTATC
GCAACGTGG
Found at i:613258 original size:19 final size:19
Alignment explanation
Indices: 613234--613270 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
613224 CGCGAATTTA
613234 GTTTCGCGTTGCAATTTTG
1 GTTTCGCGTTGCAATTTTG
*
613253 GTTTCGCGTTGCGATTTT
1 GTTTCGCGTTGCAATTTT
613271 CTCGTTGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.08, C:0.16, G:0.27, T:0.49
Consensus pattern (19 bp):
GTTTCGCGTTGCAATTTTG
Found at i:613291 original size:33 final size:34
Alignment explanation
Indices: 613254--613330 Score: 120
Period size: 33 Copynumber: 2.3 Consensus size: 34
613244 GCAATTTTGG
*
613254 TTTCGCGTTGCGATTTTCTCGTTGCAATAGTC-A
1 TTTCGCGTTGCGATTTTCTCATTGCAATAGTCAA
*
613287 TTTCGCGTTGCGATTTTCTCATTGCGATAGTCAA
1 TTTCGCGTTGCGATTTTCTCATTGCAATAGTCAA
*
613321 ATTCGCGTTG
1 TTTCGCGTTG
613331 GGATAGTCAA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
33 30 0.75
34 10 0.25
ACGTcount: A:0.16, C:0.21, G:0.22, T:0.42
Consensus pattern (34 bp):
TTTCGCGTTGCGATTTTCTCATTGCAATAGTCAA
Found at i:613337 original size:20 final size:20
Alignment explanation
Indices: 613308--613394 Score: 120
Period size: 20 Copynumber: 4.3 Consensus size: 20
613298 GATTTTCTCA
613308 TTGCGATAGTCAAATTCGCG
1 TTGCGATAGTCAAATTCGCG
* *
613328 TTGGGATAGTCAAATTCGTG
1 TTGCGATAGTCAAATTCGCG
613348 TTGCGATAGTCAAATTCGCG
1 TTGCGATAGTCAAATTCGCG
* ** *
613368 TTGCGATAATCATTTTCGTG
1 TTGCGATAGTCAAATTCGCG
613388 TTGCGAT
1 TTGCGAT
613395 TTTAAGTTTC
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 59 1.00
ACGTcount: A:0.23, C:0.16, G:0.25, T:0.36
Consensus pattern (20 bp):
TTGCGATAGTCAAATTCGCG
Found at i:613363 original size:40 final size:40
Alignment explanation
Indices: 613308--613394 Score: 138
Period size: 40 Copynumber: 2.2 Consensus size: 40
613298 GATTTTCTCA
* *
613308 TTGCGATAGTCAAATTCGCGTTGGGATAGTCAAATTCGTG
1 TTGCGATAGTCAAATTCGCGTTGCGATAATCAAATTCGTG
**
613348 TTGCGATAGTCAAATTCGCGTTGCGATAATCATTTTCGTG
1 TTGCGATAGTCAAATTCGCGTTGCGATAATCAAATTCGTG
613388 TTGCGAT
1 TTGCGAT
613395 TTTAAGTTTC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.23, C:0.16, G:0.25, T:0.36
Consensus pattern (40 bp):
TTGCGATAGTCAAATTCGCGTTGCGATAATCAAATTCGTG
Found at i:613404 original size:20 final size:20
Alignment explanation
Indices: 613381--613424 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
613371 CGATAATCAT
613381 TTTCGTGTTGCGATTTTAAG
1 TTTCGTGTTGCGATTTTAAG
613401 TTTCGTGTTGCGATTTTAAG
1 TTTCGTGTTGCGATTTTAAG
613421 TTTC
1 TTTC
613425 AGAAACTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.14, C:0.11, G:0.23, T:0.52
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTTAAG
Found at i:613995 original size:21 final size:21
Alignment explanation
Indices: 613904--614002 Score: 83
Period size: 21 Copynumber: 4.7 Consensus size: 21
613894 GACTCACCTG
* *
613904 TCATCATTCAAGAGGCCTCT-
1 TCATCGTTCAAGAGGCCCCTA
*
613924 CCTATCGTTCAAGAGGCCCCTA
1 TC-ATCGTTCAAGAGGCCCCTA
** * * *
613946 TCATCCCTCATGAGTCCCCTC
1 TCATCGTTCAAGAGGCCCCTA
* *
613967 CCACCGTTCAAGAGGCCCCTA
1 TCATCGTTCAAGAGGCCCCTA
*
613988 TCATCGTTGAAGAGG
1 TCATCGTTCAAGAGG
614003 TCCTTCCCAA
Statistics
Matches: 58, Mismatches: 19, Indels: 3
0.73 0.24 0.04
Matches are distributed among these distances:
20 1 0.02
21 56 0.97
22 1 0.02
ACGTcount: A:0.22, C:0.35, G:0.18, T:0.24
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTA
Found at i:614011 original size:42 final size:42
Alignment explanation
Indices: 613911--613992 Score: 119
Period size: 42 Copynumber: 2.0 Consensus size: 42
613901 CTGTCATCAT
* * * *
613911 TCAAGAGGCCTCTCCTATCGTTCAAGAGGCCCCTATCATCCC
1 TCAAGAGTCCCCTCCCACCGTTCAAGAGGCCCCTATCATCCC
*
613953 TCATGAGTCCCCTCCCACCGTTCAAGAGGCCCCTATCATC
1 TCAAGAGTCCCCTCCCACCGTTCAAGAGGCCCCTATCATC
613993 GTTGAAGAGG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.21, C:0.40, G:0.16, T:0.23
Consensus pattern (42 bp):
TCAAGAGTCCCCTCCCACCGTTCAAGAGGCCCCTATCATCCC
Found at i:615468 original size:36 final size:30
Alignment explanation
Indices: 615388--615453 Score: 123
Period size: 30 Copynumber: 2.2 Consensus size: 30
615378 ATAAGAGTTG
*
615388 ATTTGTTTAATTAATGTGTAAATAATTCTT
1 ATTTGTTTAATTGATGTGTAAATAATTCTT
615418 ATTTGTTTAATTGATGTGTAAATAATTCTT
1 ATTTGTTTAATTGATGTGTAAATAATTCTT
615448 ATTTGT
1 ATTTGT
615454 GCTTGTTTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.30, C:0.03, G:0.12, T:0.55
Consensus pattern (30 bp):
ATTTGTTTAATTGATGTGTAAATAATTCTT
Found at i:615540 original size:54 final size:54
Alignment explanation
Indices: 615426--615540 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
615416 TTATTTGTTT
* * *
615426 AATTGATGTGTAAATAATTCTTATTTGTGCTTGTTTAATTGATTAAAAGTTTAT
1 AATTGATGTGTAAATAATTCTTATTTGTGCTTGTGTAATTGATTAAAAGTGTAA
* *
615480 TATTGATGTGTAAATAATTCTTATTTGTGCTTGTGTAATTGATTGAAA-TGTAA
1 AATTGATGTGTAAATAATTCTTATTTGTGCTTGTGTAATTGATTAAAAGTGTAA
615533 AAGTTGAT
1 AA-TTGAT
615541 TTGTTGATTT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
53 4 0.07
54 50 0.93
ACGTcount: A:0.31, C:0.03, G:0.17, T:0.48
Consensus pattern (54 bp):
AATTGATGTGTAAATAATTCTTATTTGTGCTTGTGTAATTGATTAAAAGTGTAA
Found at i:615632 original size:20 final size:20
Alignment explanation
Indices: 615603--615840 Score: 154
Period size: 20 Copynumber: 12.8 Consensus size: 20
615593 GCGATTTTCT
* *
615603 CGTTGTGATAGTCAAATTCC
1 CGTTGCGATAGTCAAATTCG
*
615623 CGTTGCGATAATCAAATTCG
1 CGTTGCGATAGTCAAATTCG
* *
615643 CATTGCGATAGTC-ATTTCG
1 CGTTGCGATAGTCAAATTCG
* *
615662 CGTAGCGAT--T---A-TCT
1 CGTTGCGATAGTCAAATTCG
*
615676 CATTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
615696 CGTTGCGATAGTTAAATTCG
1 CGTTGCGATAGTCAAATTCG
* **
615716 CATTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCG
* *
615736 CATTGCGAT--T---A-TCC
1 CGTTGCGATAGTCAAATTCG
615750 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
**
615770 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCG
* *
615790 CATTGCGAT--T---A-TCC
1 CGTTGCGATAGTCAAATTCG
* *
615804 CGTTGCGATATTCAAATTCA
1 CGTTGCGATAGTCAAATTCG
*
615824 TGTTGCGATAGTCAAAT
1 CGTTGCGATAGTCAAAT
615841 GAATGTTTAA
Statistics
Matches: 168, Mismatches: 32, Indels: 36
0.71 0.14 0.15
Matches are distributed among these distances:
14 29 0.17
16 3 0.02
17 1 0.01
18 2 0.01
19 15 0.09
20 118 0.70
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:615704 original size:34 final size:34
Alignment explanation
Indices: 615566--615778 Score: 149
Period size: 34 Copynumber: 5.9 Consensus size: 34
615556 TGCATCATAT
* * * * * *
615566 TCGCGTTGCGATAGTCTAATACACTTTGCGATTT
1 TCGCATTGCGATAGTCAAATTCGCGTTGCGATTA
* * * *
615600 TCTCGTTGTGATAGTCAAATTCCCGTTGCGATAATCAAA
1 TCGCATTGCGATAGTCAAATTCGCGTTGCGAT--T---A
* *
615639 TTCGCATTGCGATAGTC-ATTTCGCGTAGCGATTA
1 -TCGCATTGCGATAGTCAAATTCGCGTTGCGATTA
*
615673 TCTCATTGCGATAGTCAAATTCGCGTTGCGATAGTTAAA
1 TCGCATTGCGATAGTCAAATTCGCGTTGCG--A-TT--A
** *
615712 TTCGCATTGCGATAGTCATTTTCGCATTGCGATTA
1 -TCGCATTGCGATAGTCAAATTCGCGTTGCGATTA
* *
615747 TCCCGTTGCGATAGTCAAATTCGCGTTGCGAT
1 TCGCATTGCGATAGTCAAATTCGCGTTGCGAT
615779 AGTCATTTTC
Statistics
Matches: 141, Mismatches: 25, Indels: 26
0.73 0.13 0.14
Matches are distributed among these distances:
33 15 0.11
34 65 0.46
35 1 0.01
36 2 0.01
37 5 0.04
38 1 0.01
39 13 0.09
40 39 0.28
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (34 bp):
TCGCATTGCGATAGTCAAATTCGCGTTGCGATTA
Found at i:615754 original size:54 final size:54
Alignment explanation
Indices: 615696--615837 Score: 232
Period size: 54 Copynumber: 2.6 Consensus size: 54
615686 GTCAAATTCG
*
615696 CGTTGCGATAGTTAAATTCGCATTGCGATAGTCATTTTCGCATTGCGATTATCC
1 CGTTGCGATAGTTAAATTCGCGTTGCGATAGTCATTTTCGCATTGCGATTATCC
*
615750 CGTTGCGATAGTCAAATTCGCGTTGCGATAGTCATTTTCGCATTGCGATTATCC
1 CGTTGCGATAGTTAAATTCGCGTTGCGATAGTCATTTTCGCATTGCGATTATCC
**
615804 CGTTGCGATA-TTCAAATTCATGTTGCGATAGTCA
1 CGTTGCGATAGTT-AAATTCGCGTTGCGATAGTCA
615838 AATGAATGTT
Statistics
Matches: 82, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
53 1 0.01
54 81 0.99
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.36
Consensus pattern (54 bp):
CGTTGCGATAGTTAAATTCGCGTTGCGATAGTCATTTTCGCATTGCGATTATCC
Found at i:615770 original size:74 final size:73
Alignment explanation
Indices: 615564--615798 Score: 308
Period size: 74 Copynumber: 3.2 Consensus size: 73
615554 TCTGCATCAT
* * * * * * * *
615564 ATTCGCGTTGCGATAGTCTAATACACTTTGCGATTTTCTCGTTGTGATAGTCAAATTCCCGTTGC
1 ATTCGCATTGCGATAGTC-ATTTCGCATTGCGATTATCTCGTTGCGATAGTCAAATTCGCGTTGC
*
615629 GATAATCAA
65 GATAGTCAA
* * *
615638 ATTCGCATTGCGATAGTCATTTCGCGTAGCGATTATCTCATTGCGATAGTCAAATTCGCGTTGCG
1 ATTCGCATTGCGATAGTCATTTCGCATTGCGATTATCTCGTTGCGATAGTCAAATTCGCGTTGCG
*
615703 ATAGTTAA
66 ATAGTCAA
*
615711 ATTCGCATTGCGATAGTCATTTTCGCATTGCGATTATCCCGTTGCGATAGTCAAATTCGCGTTGC
1 ATTCGCATTGCGATAGTCA-TTTCGCATTGCGATTATCTCGTTGCGATAGTCAAATTCGCGTTGC
*
615776 GATAGTCAT
65 GATAGTCAA
*
615785 TTTCGCATTGCGAT
1 ATTCGCATTGCGAT
615799 TATCCCGTTG
Statistics
Matches: 141, Mismatches: 19, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
73 63 0.45
74 78 0.55
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.36
Consensus pattern (73 bp):
ATTCGCATTGCGATAGTCATTTCGCATTGCGATTATCTCGTTGCGATAGTCAAATTCGCGTTGCG
ATAGTCAA
Found at i:615846 original size:20 final size:20
Alignment explanation
Indices: 615805--615847 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
615795 CGATTATCCC
* **
615805 GTTGCGATATTCAAATTCAT
1 GTTGCGATAGTCAAATGAAT
615825 GTTGCGATAGTCAAATGAAT
1 GTTGCGATAGTCAAATGAAT
615845 GTT
1 GTT
615848 TAATAAGTGA
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:0.30, C:0.12, G:0.21, T:0.37
Consensus pattern (20 bp):
GTTGCGATAGTCAAATGAAT
Found at i:616038 original size:18 final size:18
Alignment explanation
Indices: 616015--616049 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
616005 AAGCTGGTTG
*
616015 TGATTGGGATTTTGATTC
1 TGATTGCGATTTTGATTC
616033 TGATTGCGATTTTGATT
1 TGATTGCGATTTTGATT
616050 GCCTTTTGCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.06, G:0.26, T:0.51
Consensus pattern (18 bp):
TGATTGCGATTTTGATTC
Found at i:618330 original size:24 final size:24
Alignment explanation
Indices: 618296--618349 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
618286 CTAAAACATC
618296 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
618320 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
618344 ATCAAA
1 ATCAAA
618350 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:622962 original size:21 final size:21
Alignment explanation
Indices: 622916--622969 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
622906 GATTTTGACT
*
622916 ATCGCATTGCGATTTTCCAAA
1 ATCGCATTGCGATTTTACAAA
* * *
622937 TTCGCGTTGCGATTTTAGAAA
1 ATCGCATTGCGATTTTACAAA
*
622958 ATCGCAATGCGA
1 ATCGCATTGCGA
622970 ATATGTAAAT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.31
Consensus pattern (21 bp):
ATCGCATTGCGATTTTACAAA
Found at i:624810 original size:21 final size:21
Alignment explanation
Indices: 624784--624840 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 21
624774 TCTGAAACTT
624784 AAAATCACAACACGAAAAATA
1 AAAATCACAACACGAAAAATA
* *
624805 AAAATCGCAACAC-AAAAATG
1 AAAATCACAACACGAAAAATA
**
624825 ACTATCACAACACGAA
1 AAAATCACAACACGAA
624841 TTTGACTATT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
20 16 0.53
21 14 0.47
ACGTcount: A:0.60, C:0.23, G:0.07, T:0.11
Consensus pattern (21 bp):
AAAATCACAACACGAAAAATA
Found at i:625501 original size:21 final size:21
Alignment explanation
Indices: 625477--625545 Score: 88
Period size: 21 Copynumber: 3.3 Consensus size: 21
625467 GAAAATCACA
625477 TTGCGATTTTGTATTATCGCG
1 TTGCGATTTTGTATTATCGCG
* **
625498 TTGCGA--TAGTCAGAATCGCG
1 TTGCGATTTTGT-ATTATCGCG
625518 TTGCGATTTTGTATTATCGCG
1 TTGCGATTTTGTATTATCGCG
625539 TTGCGAT
1 TTGCGAT
625546 AGTCAGAATC
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
19 3 0.08
20 13 0.33
21 20 0.51
22 3 0.08
ACGTcount: A:0.17, C:0.16, G:0.26, T:0.41
Consensus pattern (21 bp):
TTGCGATTTTGTATTATCGCG
Found at i:625517 original size:20 final size:20
Alignment explanation
Indices: 625492--625564 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
625482 ATTTTGTATT
625492 ATCGCGTTGCGATAGTCAGA
1 ATCGCGTTGCGATAGTCAGA
* **
625512 ATCGCGTTGCGATTTTGT-ATT
1 ATCGCGTTGCGA--TAGTCAGA
625533 ATCGCGTTGCGATAGTCAGA
1 ATCGCGTTGCGATAGTCAGA
625553 ATCGCGTTGCGA
1 ATCGCGTTGCGA
625565 ATTTGGAAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
19 3 0.07
20 25 0.57
21 13 0.30
22 3 0.07
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.32
Consensus pattern (20 bp):
ATCGCGTTGCGATAGTCAGA
Found at i:625534 original size:41 final size:41
Alignment explanation
Indices: 625477--625605 Score: 179
Period size: 41 Copynumber: 3.1 Consensus size: 41
625467 GAAAATCACA
625477 TTGCGATTTTGTATTATCGCGTTGCGATAGTCAGAATCGCG
1 TTGCGATTTTGTATTATCGCGTTGCGATAGTCAGAATCGCG
625518 TTGCGATTTTGTATTATCGCGTTGCGATAGTCAGAATCGCG
1 TTGCGATTTTGTATTATCGCGTTGCGATAGTCAGAATCGCG
* * ** ** *
625559 TTGCGAATTTGGAAAATCGCAATGTGATAGTCA-ACATCGCG
1 TTGCGATTTTGTATTATCGCGTTGCGATAGTCAGA-ATCGCG
625600 TTGCGA
1 TTGCGA
625606 ATCTGAAAAC
Statistics
Matches: 80, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
40 1 0.01
41 79 0.99
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.33
Consensus pattern (41 bp):
TTGCGATTTTGTATTATCGCGTTGCGATAGTCAGAATCGCG
Found at i:634125 original size:10 final size:10
Alignment explanation
Indices: 634126--634176 Score: 66
Period size: 10 Copynumber: 5.1 Consensus size: 10
634116 AAATGAACAT
634126 GAACATAAAC
1 GAACATAAAC
*
634136 GAACATAAAT
1 GAACATAAAC
*
634146 GAACACAAAC
1 GAACATAAAC
*
634156 AAACATAAAC
1 GAACATAAAC
*
634166 GAACTTAAAC
1 GAACATAAAC
634176 G
1 G
634177 TTGAAGACCC
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 34 1.00
ACGTcount: A:0.59, C:0.20, G:0.10, T:0.12
Consensus pattern (10 bp):
GAACATAAAC
Found at i:634141 original size:16 final size:15
Alignment explanation
Indices: 634094--634169 Score: 68
Period size: 16 Copynumber: 5.0 Consensus size: 15
634084 CGTTCATTTA
634094 ATAA-ATAAACGAAC
1 ATAACATAAACGAAC
* *
634108 ACGAACATAAATGAAC
1 A-TAACATAAACGAAC
634124 ATGAACATAAACGAAC
1 AT-AACATAAACGAAC
*
634140 ATAA-ATGAACACAAAC
1 ATAACAT-AA-ACGAAC
634156 A-AACATAAACGAAC
1 ATAACATAAACGAAC
634170 TTAAACGTTG
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
14 8 0.16
15 10 0.20
16 32 0.64
ACGTcount: A:0.61, C:0.18, G:0.09, T:0.12
Consensus pattern (15 bp):
ATAACATAAACGAAC
Found at i:635222 original size:14 final size:14
Alignment explanation
Indices: 635203--635243 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
635193 GATTTGGTTA
*
635203 AACATAAATGAATG
1 AACATAAATGAACG
*
635217 AACATAACTGAACG
1 AACATAAATGAACG
635231 AACATAAATGAAC
1 AACATAAATGAAC
635244 ATAACCGAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.56, C:0.15, G:0.12, T:0.17
Consensus pattern (14 bp):
AACATAAATGAACG
Found at i:635550 original size:51 final size:51
Alignment explanation
Indices: 635474--635578 Score: 183
Period size: 51 Copynumber: 2.1 Consensus size: 51
635464 GAACAAGTAT
*
635474 TTAATTTAAACTAAACTACTTAGTAGTTATCCTTATCTAACTTTCTAAGAG
1 TTAATTTAAACTAAACTACGTAGTAGTTATCCTTATCTAACTTTCTAAGAG
* *
635525 TTAATTTAAACTAAACTACGTAGTAGTTATCTTTATCTTACTTTCTAAGAG
1 TTAATTTAAACTAAACTACGTAGTAGTTATCCTTATCTAACTTTCTAAGAG
635576 TTA
1 TTA
635579 GTGTTATATT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.34, C:0.14, G:0.09, T:0.43
Consensus pattern (51 bp):
TTAATTTAAACTAAACTACGTAGTAGTTATCCTTATCTAACTTTCTAAGAG
Found at i:635552 original size:26 final size:25
Alignment explanation
Indices: 635469--635553 Score: 61
Period size: 26 Copynumber: 3.3 Consensus size: 25
635459 GGTGAGAACA
*
635469 AGTATTTAATTTAAACTAAACTACTT
1 AGTAGTTAATTTAAACTAAACTAC-T
* *
635495 AGTAGTT-ATCCTT-ATCT-AACTTTCT
1 AGTAGTTAAT--TTAAACTAAAC-TACT
635520 AAG-AGTTAATTTAAACTAAACTACGT
1 -AGTAGTTAATTTAAACTAAACTAC-T
635546 AGTAGTTA
1 AGTAGTTA
635554 TCTTTATCTT
Statistics
Matches: 45, Mismatches: 5, Indels: 18
0.66 0.07 0.26
Matches are distributed among these distances:
24 2 0.04
25 17 0.38
26 24 0.53
27 2 0.04
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.40
Consensus pattern (25 bp):
AGTAGTTAATTTAAACTAAACTACT
Found at i:639777 original size:50 final size:50
Alignment explanation
Indices: 639702--639802 Score: 184
Period size: 50 Copynumber: 2.0 Consensus size: 50
639692 AACCAATATT
*
639702 TAATTTAAACTAAACTACTTAGTAGTTATCCTTATCTAACTTTTTAAGAG
1 TAATTTAAACTAAACTACTTAGTAGTTATCCTTATCTAACTTTCTAAGAG
*
639752 TAATTTAAACTAAACTACTTAGTAGTTATCTTTATCTAACTTTCTAAGAG
1 TAATTTAAACTAAACTACTTAGTAGTTATCCTTATCTAACTTTCTAAGAG
639802 T
1 T
639803 TAGTATTATA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.36, C:0.14, G:0.08, T:0.43
Consensus pattern (50 bp):
TAATTTAAACTAAACTACTTAGTAGTTATCCTTATCTAACTTTCTAAGAG
Found at i:639792 original size:25 final size:25
Alignment explanation
Indices: 639714--639792 Score: 72
Period size: 25 Copynumber: 3.2 Consensus size: 25
639704 ATTTAAACTA
*
639714 AACTACTTAGTAGTTATCCTTATCT
1 AACTACTTAGTAGTTATCTTTATCT
** * * *
639739 AACTTTTTAAG-AGTAAT-TTAAACT
1 AACTACTT-AGTAGTTATCTTTATCT
639763 AAACTACTTAGTAGTTATCTTTATCT
1 -AACTACTTAGTAGTTATCTTTATCT
639789 AACT
1 AACT
639793 TTCTAAGAGT
Statistics
Matches: 39, Mismatches: 11, Indels: 8
0.67 0.19 0.14
Matches are distributed among these distances:
24 6 0.15
25 26 0.67
26 7 0.18
ACGTcount: A:0.34, C:0.15, G:0.08, T:0.43
Consensus pattern (25 bp):
AACTACTTAGTAGTTATCTTTATCT
Found at i:639803 original size:25 final size:25
Alignment explanation
Indices: 639725--639804 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 25
639715 ACTACTTAGT
* *
639725 AGTTATCCTTATCTAACTTTTTAAG
1 AGTTATCTTTATCTAACTTTCTAAG
* * * * *
639750 AGTAAT-TTAAACTAAAC-TACTTAG
1 AGTTATCTTTATCT-AACTTTCTAAG
639774 TAGTTATCTTTATCTAACTTTCTAAG
1 -AGTTATCTTTATCTAACTTTCTAAG
639800 AGTTA
1 AGTTA
639805 GTATTATATT
Statistics
Matches: 39, Mismatches: 12, Indels: 8
0.66 0.20 0.14
Matches are distributed among these distances:
24 8 0.21
25 21 0.54
26 10 0.26
ACGTcount: A:0.34, C:0.14, G:0.09, T:0.44
Consensus pattern (25 bp):
AGTTATCTTTATCTAACTTTCTAAG
Found at i:640035 original size:31 final size:31
Alignment explanation
Indices: 640000--640074 Score: 141
Period size: 31 Copynumber: 2.4 Consensus size: 31
639990 ATTCATATAT
640000 TCGGGTCGGGTCGGGTGAAACTTTATTTTGG
1 TCGGGTCGGGTCGGGTGAAACTTTATTTTGG
*
640031 TCGGGTCGGGTTGGGTGAAACTTTATTTTGG
1 TCGGGTCGGGTCGGGTGAAACTTTATTTTGG
640062 TCGGGTCGGGTCG
1 TCGGGTCGGGTCG
640075 AGTTCGGGTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.11, C:0.13, G:0.41, T:0.35
Consensus pattern (31 bp):
TCGGGTCGGGTCGGGTGAAACTTTATTTTGG
Found at i:640349 original size:38 final size:38
Alignment explanation
Indices: 640298--640375 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
640288 TCGGGTTAGG
640298 TTTTTTAAGTGTGATATTCAGGTCGAGTCGGGTCGGGT
1 TTTTTTAAGTGTGATATTCAGGTCGAGTCGGGTCGGGT
*
640336 TTTTTTAAGTGTGATATTCAGGTCGGGTCGGGTCGGGT
1 TTTTTTAAGTGTGATATTCAGGTCGAGTCGGGTCGGGT
640374 TT
1 TT
640376 GAGTTTAGGG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.14, C:0.10, G:0.35, T:0.41
Consensus pattern (38 bp):
TTTTTTAAGTGTGATATTCAGGTCGAGTCGGGTCGGGT
Found at i:641234 original size:2 final size:2
Alignment explanation
Indices: 641227--641282 Score: 62
Period size: 2 Copynumber: 29.0 Consensus size: 2
641217 ATCGGGTCGG
* * * *
641227 AT AT AT AT AT AT AT AT AT AT AT TT AA AT -T AA AT AT AT AA AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
641268 AT -T AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
641283 TTTAATTTAA
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
1 2 0.05
2 42 0.95
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:656433 original size:30 final size:30
Alignment explanation
Indices: 656392--656463 Score: 99
Period size: 30 Copynumber: 2.4 Consensus size: 30
656382 GAAAAGTTAT
* * *
656392 AAATCGGTCACTAACGTTTTCGTTTGTAACA
1 AAAT-GGTCACTAACATTATCATTTGTAACA
*
656423 AAATGGTCACTAACATTATCATTTGTTACA
1 AAATGGTCACTAACATTATCATTTGTAACA
656453 AAATGGTCACT
1 AAATGGTCACT
656464 CGACGTTAAC
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
30 33 0.89
31 4 0.11
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (30 bp):
AAATGGTCACTAACATTATCATTTGTAACA
Found at i:657489 original size:3 final size:3
Alignment explanation
Indices: 657481--657529 Score: 62
Period size: 3 Copynumber: 16.0 Consensus size: 3
657471 GAGCACCTTC
* * *
657481 AGG AGG AGG AGA AGG TGG AGG AGG TGG AGG AGG AGG AGG AGGG AGG
1 AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG A-GG AGG
657527 AGG
1 AGG
657530 GGGAAGAAGA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
3 36 0.92
4 3 0.08
ACGTcount: A:0.31, C:0.00, G:0.65, T:0.04
Consensus pattern (3 bp):
AGG
Found at i:657671 original size:30 final size:30
Alignment explanation
Indices: 657637--657711 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 30
657627 TGTTAACGTC
**
657637 AAGTGACCATTTTGTAACAAACGATAATGT
1 AAGTGACCATTTTGTAACAAACGATAACAT
* * *
657667 AAGTGATCATTTTATAATAAACGATAACAT
1 AAGTGACCATTTTGTAACAAACGATAACAT
* *
657697 TAGTGACCAATTTGT
1 AAGTGACCATTTTGT
657712 TACTTTTCAA
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (30 bp):
AAGTGACCATTTTGTAACAAACGATAACAT
Found at i:657830 original size:14 final size:16
Alignment explanation
Indices: 657800--657832 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
657790 ATTAGTTGGA
657800 ATAATTTTAATATTTT
1 ATAATTTTAATATTTT
657816 ATAA-TTTAA-ATTTT
1 ATAATTTTAATATTTT
657830 ATA
1 ATA
657833 GAATTTTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.47
15 5 0.29
16 4 0.24
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
ATAATTTTAATATTTT
Found at i:659845 original size:20 final size:22
Alignment explanation
Indices: 659804--659860 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 22
659794 AACTTATGAA
659804 ATAATTATTAAAAAATATATTT
1 ATAATTATTAAAAAATATATTT
659826 ATAA-TATTATAAAAATAT-TTAT
1 ATAATTATTA-AAAAATATATT-T
*
659848 TTAATT-TTAAAAA
1 ATAATTATTAAAAA
659861 TCAAATTAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
21 11 0.35
22 19 0.61
23 1 0.03
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
ATAATTATTAAAAAATATATTT
Found at i:660029 original size:23 final size:23
Alignment explanation
Indices: 659999--660044 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
659989 AGATAATTTA
659999 AAATAATATTATTTAAAATAAAT
1 AAATAATATTATTTAAAATAAAT
*
660022 AAATAATATTATTTCAAATAAAT
1 AAATAATATTATTTAAAATAAAT
660045 GATATGGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (23 bp):
AAATAATATTATTTAAAATAAAT
Found at i:660165 original size:19 final size:19
Alignment explanation
Indices: 660138--660176 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
660128 GTTTTATGAT
*
660138 TTTTTTAAAAAAATATAAA
1 TTTTATAAAAAAATATAAA
* *
660157 TTTTATAAATATATATAAA
1 TTTTATAAAAAAATATAAA
660176 T
1 T
660177 AATTATTTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTTATAAAAAAATATAAA
Found at i:662231 original size:18 final size:16
Alignment explanation
Indices: 662171--662231 Score: 52
Period size: 18 Copynumber: 3.6 Consensus size: 16
662161 AATAAATTGA
662171 TTATTATTTAATATTATT
1 TTATTATTTAAT-TTA-T
662189 TTATTATTTAA-TTAT
1 TTATTATTTAATTTAT
**
662204 AAACTTATTTAATTTTTAT
1 TTA-TTATTTAA--TTTAT
662223 TTATTATTT
1 TTATTATTT
662232 GTAGTTAACA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
15 2 0.06
16 11 0.31
18 17 0.49
19 5 0.14
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66
Consensus pattern (16 bp):
TTATTATTTAATTTAT
Found at i:663610 original size:121 final size:124
Alignment explanation
Indices: 663375--663654 Score: 334
Period size: 124 Copynumber: 2.3 Consensus size: 124
663365 AGAAATATAG
* * ** **** *
663375 AAAAATCAGACAAACTTAATGAAAGACTCGTTGTAGGGGACGTGTTTTCCTTTTTTTTTTTTACA
1 AAAAATCAGACAAACTTAATGAAAGGCTCGTTGCAGGGGACGTCATTTCCCCCCTTTTTTGTA-A
* * * * *
663440 GAGAATCTCTTCCATGTCATGTAAAAATCAAACTTCAATTAATTGACTAATAAATG-AAG
65 GAAAATCTCTACCATGTAATGTAAAAATCAAACTTCAATTAATTGACTAAGAAATGAAAA
* *
663499 GAAATTCAGACAAACTTAATGAAAGGCTCGTTGCAGGGGACG-CATTTCCCCCCTTTTTTGT-AG
1 AAAAATCAGACAAACTTAATGAAAGGCTCGTTGCAGGGGACGTCATTTCCCCCCTTTTTTGTAAG
*
663562 AAAATCTCTACCATTTAATAG-AAAAATCAAACTTCAATTAATTGACTAAGAAATGCAAAAA
66 AAAATCTCTACCATGTAAT-GTAAAAATCAAACTTCAATTAATTGACTAAGAAATG--AAAA
*
663623 AAAAATCAGAAAAACTTAATGAAAGGCTCGTT
1 AAAAATCAGACAAACTTAATGAAAGGCTCGTT
663655 TCAAGGGATA
Statistics
Matches: 132, Mismatches: 20, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
121 50 0.38
122 1 0.01
123 12 0.09
124 69 0.52
ACGTcount: A:0.39, C:0.16, G:0.15, T:0.30
Consensus pattern (124 bp):
AAAAATCAGACAAACTTAATGAAAGGCTCGTTGCAGGGGACGTCATTTCCCCCCTTTTTTGTAAG
AAAATCTCTACCATGTAATGTAAAAATCAAACTTCAATTAATTGACTAAGAAATGAAAA
Found at i:663901 original size:8 final size:8
Alignment explanation
Indices: 663821--663910 Score: 54
Period size: 8 Copynumber: 11.2 Consensus size: 8
663811 ATAGTTCCCC
*
663821 AACTCTCT
1 AACTCTCA
* *
663829 ATCTCTTA
1 AACTCTCA
*
663837 AACTCTTA
1 AACTCTCA
* *
663845 AATTATCA
1 AACTCTCA
*
663853 AACTCTCG
1 AACTCTCA
* * *
663861 AGCTTTGA
1 AACTCTCA
*
663869 AACTATCA
1 AACTCTCA
*
663877 AACTCTAA
1 AACTCTCA
*
663885 AACTTTCA
1 AACTCTCA
663893 AACTCTCA
1 AACTCTCA
*
663901 AATTCTCA
1 AACTCTCA
663909 AA
1 AA
663911 ATGGCTCATA
Statistics
Matches: 59, Mismatches: 23, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
8 59 1.00
ACGTcount: A:0.38, C:0.26, G:0.03, T:0.33
Consensus pattern (8 bp):
AACTCTCA
Found at i:663901 original size:24 final size:25
Alignment explanation
Indices: 663848--663911 Score: 69
Period size: 24 Copynumber: 2.6 Consensus size: 25
663838 ACTCTTAAAT
* * *
663848 TATCAAACTCTC-GAGCTTTGAAAC
1 TATCAAACTCTCAAAACTTTCAAAC
663872 TATCAAACTCT-AAAACTTTCAAAC
1 TATCAAACTCTCAAAACTTTCAAAC
* *
663896 TCTCAAATTCTCAAAA
1 TATCAAACTCTCAAAA
663912 TGGCTCATAT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
24 29 0.88
25 4 0.12
ACGTcount: A:0.41, C:0.25, G:0.05, T:0.30
Consensus pattern (25 bp):
TATCAAACTCTCAAAACTTTCAAAC
Found at i:666846 original size:29 final size:30
Alignment explanation
Indices: 666788--666860 Score: 89
Period size: 29 Copynumber: 2.4 Consensus size: 30
666778 AATATAATCT
666788 TAAACCCTAAAAACCCTAAACCAATATAAAA-A
1 TAAACCCT--AAA-CCTAAACCAATATAAAAGA
*
666820 TAAACCCTAAACCTAAACCAATCTAAAAGA
1 TAAACCCTAAACCTAAACCAATATAAAAGA
666850 -AAA-CCTAAACC
1 TAAACCCTAAACC
666861 AAAAATTGGG
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
28 8 0.21
29 19 0.49
30 4 0.10
32 8 0.21
ACGTcount: A:0.56, C:0.27, G:0.01, T:0.15
Consensus pattern (30 bp):
TAAACCCTAAACCTAAACCAATATAAAAGA
Found at i:669548 original size:23 final size:23
Alignment explanation
Indices: 669522--669599 Score: 84
Period size: 23 Copynumber: 3.3 Consensus size: 23
669512 CACCACAGCT
* * *
669522 CATATAAATACACCGAAGTGCCA
1 CATATAATTGCACCGTAGTGCCA
* *
669545 CATAGAATTGCACCGTAGTGCCG
1 CATATAATTGCACCGTAGTGCCA
*
669568 CGTATAATTGCACCGTAGTGCCA
1 CATATAATTGCACCGTAGTGCCA
*
669591 TATAATAAT
1 CAT-ATAAT
669600 GTCCATAAGG
Statistics
Matches: 44, Mismatches: 10, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
23 39 0.89
24 5 0.11
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (23 bp):
CATATAATTGCACCGTAGTGCCA
Found at i:669731 original size:103 final size:103
Alignment explanation
Indices: 669606--669823 Score: 418
Period size: 103 Copynumber: 2.1 Consensus size: 103
669596 TAATGTCCAT
669606 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
669671 GACTTCACACATATTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATATTCCAAAGAATACATATATGTCCCG
669709 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
* *
669774 GACTTCACACATGTTCCAAAGAATATATATATGTCCCG
66 GACTTCACACATATTCCAAAGAATACATATATGTCCCG
669812 AAGGACCACATA
1 AAGGACCACATA
669824 GACCCTCGAC
Statistics
Matches: 113, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
103 113 1.00
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
GACTTCACACATATTCCAAAGAATACATATATGTCCCG
Found at i:674699 original size:15 final size:15
Alignment explanation
Indices: 674679--674720 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
674669 CTTCATGGGG
*
674679 TAAGAAGACAACGTC
1 TAAGAAGAAAACGTC
674694 TAAGAAGAAAACGTC
1 TAAGAAGAAAACGTC
*
674709 AAAGAAGGAAAA
1 TAAGAA-GAAAA
674721 AGAAAGAATC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 19 0.79
16 5 0.21
ACGTcount: A:0.57, C:0.12, G:0.21, T:0.10
Consensus pattern (15 bp):
TAAGAAGAAAACGTC
Found at i:678288 original size:48 final size:47
Alignment explanation
Indices: 678235--678325 Score: 141
Period size: 48 Copynumber: 1.9 Consensus size: 47
678225 AACTTGTTGA
678235 AAAAGAAGAGGAG-AAAGGAGAAGGGACACCG-AAGACGGAAAAGAGAAG
1 AAAAGAAGAGG-GTAAAGGAGAAGGGACACCGCAA-A-GGAAAAGAGAAG
678283 AAAAGAAGAGGGTAAAGGAGAAGGGACACCGCAAAGGAAAAGA
1 AAAAGAAGAGGGTAAAGGAGAAGGGACACCGCAAAGGAAAAGA
678326 AATAGGAGAA
Statistics
Matches: 41, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
47 9 0.22
48 30 0.73
49 2 0.05
ACGTcount: A:0.54, C:0.09, G:0.36, T:0.01
Consensus pattern (47 bp):
AAAAGAAGAGGGTAAAGGAGAAGGGACACCGCAAAGGAAAAGAGAAG
Found at i:678476 original size:162 final size:163
Alignment explanation
Indices: 678189--678516 Score: 574
Period size: 162 Copynumber: 2.0 Consensus size: 163
678179 GAACGGAGAT
678189 GAAATAGAAAGTAATAAAGGAAAAAACGACAAAGAGAACTTGTTGAAAAAGAAGAGGAGAAAGGA
1 GAAATAGAAAGTAATAAAGGAAAAAAC-ACAAAGAGAACTTGTTGAAAAAGAAGA-GAGAAAGGA
*
678254 GAAGGGACACCGAAGACGGAAAAGAGAAGAAAAGAAGAGGGTAAAGGAGAAGGGACACCGCAAAG
64 GAAGGGACACCGAAGACGAAAAAGAGAAGAAAAGAAGAGGGTAAAGGAGAAGGGACACCGCAAAG
678319 GAAAAGAAATAGGAGAAAGAAGAAGGGACA-TAAAGA
129 GAAAAG-AA-AGGAGAAAGAAGAAGGGACACTAAAGA
678355 GAAATAGAAAGTAATAAAGGAAAAAA-ACAAAGAGAACTTGTTG-AAAAGAAGA-AGAAAGGAGA
1 GAAATAGAAAGTAATAAAGGAAAAAACACAAAGAGAACTTGTTGAAAAAGAAGAGAGAAAGGAGA
678417 AGGGACACCGAAGACGAAAAAGAGAAAGAAAAGAAGAGGGTAAAGGAGAAGGGACACCGCAAAGG
66 AGGGACACCGAAGACGAAAAAGAG-AAGAAAAGAAGAGGGTAAAGGAGAAGGGACACCGCAAAGG
678482 AAAAGAAAGGAGAAAGAAGAAGGGACACTAAAGA
130 AAAAGAAAGGAGAAAGAAGAAGGGACACTAAAGA
678516 G
1 G
678517 GGAAAGAAAG
Statistics
Matches: 159, Mismatches: 1, Indels: 9
0.94 0.01 0.05
Matches are distributed among these distances:
160 20 0.13
161 42 0.26
162 45 0.28
163 9 0.06
164 17 0.11
166 26 0.16
ACGTcount: A:0.56, C:0.07, G:0.31, T:0.06
Consensus pattern (163 bp):
GAAATAGAAAGTAATAAAGGAAAAAACACAAAGAGAACTTGTTGAAAAAGAAGAGAGAAAGGAGA
AGGGACACCGAAGACGAAAAAGAGAAGAAAAGAAGAGGGTAAAGGAGAAGGGACACCGCAAAGGA
AAAGAAAGGAGAAAGAAGAAGGGACACTAAAGA
Found at i:678485 original size:49 final size:45
Alignment explanation
Indices: 678397--678503 Score: 126
Period size: 49 Copynumber: 2.3 Consensus size: 45
678387 AGAACTTGTT
678397 GAAAAGAAGAAGAAAGGAGAAGGGACACCGAAGACGAAAAAGAGAAA
1 GAAAAGAAGAAGAAAGGAGAAGGGACACCGAAGACG-AAAAGA-AAA
* * *
678444 GAAAAGAAGAGGGTAAAGGAGAAGGGACACCGCAA-AGGAAAAGAAAG
1 GAAAAGAAGA-AG-AAAGGAGAAGGGACACCG-AAGACGAAAAGAAAA
678491 GAGAAAGAAGAAG
1 GA-AAAGAAGAAG
678504 GGACACTAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
47 15 0.29
48 15 0.29
49 20 0.38
50 2 0.04
ACGTcount: A:0.57, C:0.07, G:0.35, T:0.01
Consensus pattern (45 bp):
GAAAAGAAGAAGAAAGGAGAAGGGACACCGAAGACGAAAAGAAAA
Found at i:679058 original size:12 final size:12
Alignment explanation
Indices: 679041--679068 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
679031 TAATCCCGGG
679041 TTTGTTTTTTCA
1 TTTGTTTTTTCA
679053 TTTGTTTTTTCA
1 TTTGTTTTTTCA
679065 TTTG
1 TTTG
679069 ATTATCAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.07, G:0.11, T:0.75
Consensus pattern (12 bp):
TTTGTTTTTTCA
Found at i:680287 original size:2 final size:2
Alignment explanation
Indices: 680276--680412 Score: 126
Period size: 2 Copynumber: 71.5 Consensus size: 2
680266 TCAATCTACA
680276 AT AT -T AT AT AT AT AT AT AT AT AT AT -T CAT -T AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT
* * * * * *
680315 -T AT AT TT AT AT -T TT AT TT AT AT TT AT AT TT AT TT 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
* * * *
680355 AT AT AT AT AT TT AT AT CT AT AT AT TT AA 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
680397 AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT A
680413 ATTTTCGAAA
Statistics
Matches: 108, Mismatches: 19, Indels: 16
0.76 0.13 0.11
Matches are distributed among these distances:
1 7 0.06
2 100 0.93
3 1 0.01
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.56
Consensus pattern (2 bp):
AT
Found at i:680563 original size:85 final size:84
Alignment explanation
Indices: 680472--680767 Score: 380
Period size: 85 Copynumber: 3.5 Consensus size: 84
680462 AACGTGTGCA
* * *
680472 TCAATGACACGCAATGTAAGTCATATATGCGTGTCATAAATTTATGACACACAAATGTATGTCAA
1 TCAATGACACGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACGCACAAATGTGTGTC-A
* *
680537 GC-AGATTTATGATGGGGGCT
65 TCTA-ATTTATGACGGGGGCT
** * * *
680557 TCAATGATGCACAATGTAAGTCATACATGCATGTCATAAATTTATGATGCACAAATGTGTGTCAT
1 TCAATGACACGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACGCACAAATGTGTGTCAT
*
680622 CTTAATTTATGACGAGGGCT
66 C-TAATTTATGACGGGGGCT
*
680642 TCAATGACGCGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACGCACAAATGTGTGTCAT
1 TCAATGACACGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACGCACAAATGTGTGTCAT
680707 CTTAATTTATGACGGGGGCT
66 C-TAATTTATGACGGGGGCT
* * * * *
680727 TCAATGACACTCAAAG-AACGTCATAAATGTGCGTCATAAAT
1 TCAATGACACGCAATGTAA-GTCATACATGCGTGTCATAAAT
680768 GCGCGTCATA
Statistics
Matches: 186, Mismatches: 22, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
84 4 0.02
85 181 0.97
86 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (84 bp):
TCAATGACACGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACGCACAAATGTGTGTCAT
CTAATTTATGACGGGGGCT
Found at i:680763 original size:13 final size:13
Alignment explanation
Indices: 680745--680777 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
680735 ACTCAAAGAA
*
680745 CGTCATAAATGTG
1 CGTCATAAATGCG
680758 CGTCATAAATGCG
1 CGTCATAAATGCG
680771 CGTCATA
1 CGTCATA
680778 GATTTATGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.27
Consensus pattern (13 bp):
CGTCATAAATGCG
Found at i:687734 original size:2 final size:2
Alignment explanation
Indices: 687727--687794 Score: 136
Period size: 2 Copynumber: 34.0 Consensus size: 2
687717 CTTTCAAAAT
687727 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
687769 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
687795 GTTAACATTC
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 66 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:689013 original size:56 final size:57
Alignment explanation
Indices: 688902--689016 Score: 135
Period size: 56 Copynumber: 2.0 Consensus size: 57
688892 AGTGAAAGAC
* * *
688902 GGAGATCTGGTTCAGAAATTATCTCTGTTCTTCAACCCTTTGAACTATGCTTGTGTTT
1 GGAGATCTGATTCAGAAATGA-CTCTGTTCTTCAACCCTTTGAACTATGATTGTGTTT
* ***
688960 GGAGATCTGATTCAGAAATGA-TCTGATT-TTCTACCCTTTTCTCTATGATTGTGTTT
1 GGAGATCTGATTCAGAAATGACTCTG-TTCTTCAACCCTTTGAACTATGATTGTGTTT
689016 G
1 G
689017 TGCAATAACT
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
56 28 0.57
57 2 0.04
58 19 0.39
ACGTcount: A:0.21, C:0.17, G:0.19, T:0.43
Consensus pattern (57 bp):
GGAGATCTGATTCAGAAATGACTCTGTTCTTCAACCCTTTGAACTATGATTGTGTTT
Found at i:692652 original size:13 final size:13
Alignment explanation
Indices: 692630--692682 Score: 61
Period size: 13 Copynumber: 4.0 Consensus size: 13
692620 AAAATATTAT
* *
692630 TTATTCAATAATG
1 TTATTTAATAATA
*
692643 TTATTTAATATTA
1 TTATTTAATAATA
692656 TTATTTAATAATA
1 TTATTTAATAATA
*
692669 CTATTTTAATAATA
1 TTA-TTTAATAATA
692683 AAATTCAATA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
13 24 0.71
14 10 0.29
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.53
Consensus pattern (13 bp):
TTATTTAATAATA
Found at i:692676 original size:27 final size:27
Alignment explanation
Indices: 692622--692679 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
692612 TTACTTTTAA
**
692622 AATATTATTTATTCAATAATGTTATTT
1 AATATTATTTATTCAATAATACTATTT
*
692649 AATATTA-TTATTTAATAATACTATTTT
1 AATATTATTTATTCAATAATACTA-TTT
692676 AATA
1 AATA
692680 ATAAAATTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 13 0.48
27 14 0.52
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.53
Consensus pattern (27 bp):
AATATTATTTATTCAATAATACTATTT
Found at i:698063 original size:21 final size:23
Alignment explanation
Indices: 698008--698088 Score: 78
Period size: 23 Copynumber: 3.6 Consensus size: 23
697998 ACCCGACGGA
698008 TGCATCGATGCACATTCAAGGAG
1 TGCATCGATGCACATTCAAGGAG
* * *
698031 TGCATCGGTGCACCTTC-ATG-G
1 TGCATCGATGCACATTCAAGGAG
* *
698052 TGTATCGATGCAAATTCAAAGG-G
1 TGCATCGATGCACATTC-AAGGAG
698075 ATGCATCGATGCAC
1 -TGCATCGATGCAC
698089 TGTTAAGTGT
Statistics
Matches: 45, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
21 14 0.31
22 2 0.04
23 18 0.40
24 11 0.24
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (23 bp):
TGCATCGATGCACATTCAAGGAG
Found at i:703932 original size:19 final size:19
Alignment explanation
Indices: 703908--703960 Score: 79
Period size: 19 Copynumber: 2.8 Consensus size: 19
703898 ACAAGCCCGA
*
703908 GTGCATCGATGCATAGTCT
1 GTGCATCGATGCATAGTAT
* *
703927 GTGCATCGATGTATGGTAT
1 GTGCATCGATGCATAGTAT
703946 GTGCATCGATGCATA
1 GTGCATCGATGCATA
703961 AAATGCATTC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (19 bp):
GTGCATCGATGCATAGTAT
Found at i:704454 original size:16 final size:17
Alignment explanation
Indices: 704415--704457 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
704405 TCCTACTTGA
704415 TTAAATATTTAATAAAT
1 TTAAATATTTAATAAAT
* *
704432 TT-TATATTT-TTAAAT
1 TTAAATATTTAATAAAT
704447 TTAAATATTTA
1 TTAAATATTTA
704458 TTTTTATATG
Statistics
Matches: 21, Mismatches: 3, Indels: 4
0.75 0.11 0.14
Matches are distributed among these distances:
15 7 0.33
16 12 0.57
17 2 0.10
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TTAAATATTTAATAAAT
Found at i:705213 original size:51 final size:50
Alignment explanation
Indices: 705122--705240 Score: 130
Period size: 50 Copynumber: 2.3 Consensus size: 50
705112 GTAAAGCGCA
** *
705122 CCCCTTGCACCGCGCTATACGATGATTTGACGCCACGTGGGGTATAGCGCGT
1 CCCC-TGCACCGCGCTATACGATGAGCTGACGCCACGT-GGGTATAGCGCGG
* ** * *
705174 CCCCTGCACCGCGCTATACGGTGAGCTGGTGTCATGTGGGTATAGCGCGG
1 CCCCTGCACCGCGCTATACGATGAGCTGACGCCACGTGGGTATAGCGCGG
* *
705224 CCCCTACAGCGCGCTAT
1 CCCCTGCACCGCGCTAT
705241 GCATGTATAT
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
50 27 0.47
51 26 0.46
52 4 0.07
ACGTcount: A:0.16, C:0.32, G:0.30, T:0.22
Consensus pattern (50 bp):
CCCCTGCACCGCGCTATACGATGAGCTGACGCCACGTGGGTATAGCGCGG
Found at i:705657 original size:110 final size:111
Alignment explanation
Indices: 705517--705737 Score: 363
Period size: 110 Copynumber: 2.0 Consensus size: 111
705507 TGGAAATCAT
*
705517 ATATCTCTACACTTTGCTGATACGATAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCAACACTTTGCTGATACGATAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
* * * *
705582 TATTTAGTT-ATTTATTTAATGCATGATTATTATATTAATAATTAA
66 TAATTAGTTGATTCATTTAATGCATGATTATTAGATTAAGAATTAA
* *
705627 ATATCTCAACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTATTAA
1 ATATCTCAACACTTTGCTGATACGATAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
*
705692 TAATTAGTTGATTCATTTAATGCATGATTTTTAGATTAAGAATTAA
66 TAATTAGTTGATTCATTTAATGCATGATTATTAGATTAAGAATTAA
705738 TTTTGTAATT
Statistics
Matches: 102, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
110 70 0.69
111 32 0.31
ACGTcount: A:0.36, C:0.09, G:0.09, T:0.47
Consensus pattern (111 bp):
ATATCTCAACACTTTGCTGATACGATAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
TAATTAGTTGATTCATTTAATGCATGATTATTAGATTAAGAATTAA
Found at i:711872 original size:3 final size:3
Alignment explanation
Indices: 711866--711894 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
711856 TTTAATAATA
711866 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
711895 AATTTTAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:712171 original size:76 final size:76
Alignment explanation
Indices: 712074--712787 Score: 1275
Period size: 76 Copynumber: 9.4 Consensus size: 76
712064 GAGGTCTTAA
* *
712074 AAACATCATGCACTTCAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
712139 AGGCTTTTTGG
66 AGGCTTTTTGG
* *
712150 AAACATCATGCACTACAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
712215 AGGCTTTTTGG
66 AGGCTTTTTGG
*
712226 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
712291 AGGCTTTTTGG
66 AGGCTTTTTGG
* * *
712302 AAATATCATGCACTGCAGGACTTACAGATGACCCTAAGGTTTTAAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
712367 AGGCTTTTTGG
66 AGGCTTTTTGG
* * *
712378 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTAAAAACATCAAAAAGCTCCCGG
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
712443 AGGCTTTTTGG
66 AGGCTTTTTGG
* * *
712454 AAACATAATGCACTGTAGGACTTACAGATGACTCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
712519 AGGCTTTTTGG
66 AGGCTTTTTGG
*
712530 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
712595 AGGCTTTTTGG
66 AGGCTTTTTGG
712606 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
712671 AGGCTTTTTGG
66 AGGCTTTTTGG
*
712682 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
712747 AGGCTTTTTGG
66 AGGCTTTTTGG
*
712758 AAACATCATGCACTGTAGGACTTACAGATG
1 AAACATCATGCACTGCAGGACTTACAGATG
712788 TGGGAAATAG
Statistics
Matches: 622, Mismatches: 16, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 622 1.00
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.24
Consensus pattern (76 bp):
AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
AGGCTTTTTGG
Found at i:713073 original size:167 final size:169
Alignment explanation
Indices: 712791--713110 Score: 509
Period size: 167 Copynumber: 1.9 Consensus size: 169
712781 ACAGATGTGG
* *
712791 GAAATAGTTTACTAAGTAAAAAAAACTAAGGAAATCGTTTTCTTACTTTTCAACAATTTCATTTT
1 GAAATAGTTTACTAAGTAAAAAAAACTAAGAAAATCGTTTTCTTACATTTCAACAATTTCATTTT
** *
712856 TAGAAAAGATTGAATGAGAAACTAGGAAAATCGTTTTCTCATTATGTTTTTCAAAATAACATGTT
66 TAGAAAAGATAAAATGAGAAACTAGGAAAATCGTTTTCTCATTATGTTTTTCAAAATAACATATT
*
712921 GATTGGGTAAAATGCCCCAATCTCAAGATAAGGCTATTA
131 GATTGGGTAAAATGACCCAATCTCAAGATAAGGCTATTA
*
712960 GAAATAGTTTACTAAGT-AAAAAAACTAATAAAATCGTTTTCTTACATTTCAACAATTTCA-TTT
1 GAAATAGTTTACTAAGTAAAAAAAACTAAGAAAATCGTTTTCTTACATTTCAACAATTTCATTTT
* * **
713023 TAGAAAAGATAAAATGAGAAACTATGAAAATCGTTTTCTCATTCTGTTTTTTGAAATAACATATT
66 TAGAAAAGATAAAATGAGAAACTAGGAAAATCGTTTTCTCATTATGTTTTTCAAAATAACATATT
* *
713088 GATTGTGTAACATGACCCAATCT
131 GATTGGGTAAAATGACCCAATCT
713111 GAATATAATG
Statistics
Matches: 138, Mismatches: 13, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
167 81 0.59
168 40 0.29
169 17 0.12
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.35
Consensus pattern (169 bp):
GAAATAGTTTACTAAGTAAAAAAAACTAAGAAAATCGTTTTCTTACATTTCAACAATTTCATTTT
TAGAAAAGATAAAATGAGAAACTAGGAAAATCGTTTTCTCATTATGTTTTTCAAAATAACATATT
GATTGGGTAAAATGACCCAATCTCAAGATAAGGCTATTA
Found at i:713667 original size:22 final size:22
Alignment explanation
Indices: 713633--713684 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
713623 AATAAAGCTT
*
713633 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTAAAAAGAGAATCTA
*
713655 TCATTTTTAAAAAGAGAATCTA
1 TCATCTTTAAAAAGAGAATCTA
713677 TCATCTTT
1 TCATCTTT
713685 GAAGAGTGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.38
Consensus pattern (22 bp):
TCATCTTTAAAAAGAGAATCTA
Found at i:714134 original size:54 final size:54
Alignment explanation
Indices: 714052--714207 Score: 276
Period size: 54 Copynumber: 2.9 Consensus size: 54
714042 AGAATAGCAG
* *
714052 GTTCGTAAAACATTTGACAGCGCATTCATCCTTTCATGTGGCTTCTGCTCAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCATGTGGCTTCTGCTCAGAT
*
714106 GTTCGTAAAACATTTGACAACACATTCATCCTTTCATGTGGCTTCTGTTCAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCATGTGGCTTCTGCTCAGAT
*
714160 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGC
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCATGTGGCTTCTGC
714208 CAAGATTTCT
Statistics
Matches: 97, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 97 1.00
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (54 bp):
GTTCGTAAAACATTTGACAACACATTCATCCTTTCATGTGGCTTCTGCTCAGAT
Found at i:716486 original size:114 final size:114
Alignment explanation
Indices: 716286--716511 Score: 389
Period size: 114 Copynumber: 2.0 Consensus size: 114
716276 GATCATATAG
* * *
716286 TTCATCTTTCAATTCCAATAATTGGTTATGGGGTTCCTACCGAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATAATTGGTTATGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
716351 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
66 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
* *
716400 TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATAATTGGTTATGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
**
716465 ACACTTCCAGAAGATGCTATTGGGTCTTTTTATTTCTACTATGAGCA
66 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCA
716512 CATGGCACTT
Statistics
Matches: 105, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
114 105 1.00
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.33
Consensus pattern (114 bp):
TTCATCTTTCAAATCCAATAATTGGTTATGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
Found at i:721595 original size:15 final size:14
Alignment explanation
Indices: 721544--721595 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
721534 TAAAAGTATG
* *
721544 AATGCAAAATGAAA
1 AATGAAAAATGCAA
721558 AATGAAAAGATGCAA
1 AATGAAAA-ATGCAA
721573 AATG-AAAATGCATA
1 AATGAAAAATGCA-A
*
721587 TATGAAAAA
1 AATGAAAAA
721596 GTGTTACTCA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 5 0.16
14 14 0.44
15 13 0.41
ACGTcount: A:0.62, C:0.06, G:0.15, T:0.17
Consensus pattern (14 bp):
AATGAAAAATGCAA
Found at i:725743 original size:3 final size:3
Alignment explanation
Indices: 725737--725796 Score: 57
Period size: 3 Copynumber: 20.0 Consensus size: 3
725727 ATAATATATT
* * * * * **
725737 TAA TAA TAA TAA TAA TAA TAA TTA TTA TTA TTA TTA TAA TAA TTT TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
725785 TAA TAA TAA TAA
1 TAA TAA TAA TAA
725797 AAACAAAAAT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (3 bp):
TAA
Found at i:726472 original size:64 final size:67
Alignment explanation
Indices: 726363--726490 Score: 201
Period size: 64 Copynumber: 2.0 Consensus size: 67
726353 ATTTTCATCT
*
726363 TTTAATGGAGGTATGCATCGATGCACTACACCATGCATCGATGCATAAATCCTATTCGATGTTTG
1 TTTAATGGAGGTATGCATCAATGCACTACACCATGCATCGATGCATAAATCCTATTCGATGTTTG
726428 TA
66 TA
*
726430 TTTAATGG-GG-ATGCATCAATGCACT-C-CTTATGCATCGATGCATAAATCCTATTCGATGTTT
1 TTTAATGGAGGTATGCATCAATGCACTACAC-CATGCATCGATGCATAAATCCTATTCGATGTTT
726491 TCTTTTTAAA
Statistics
Matches: 58, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
63 1 0.02
64 33 0.57
65 14 0.24
66 2 0.03
67 8 0.14
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (67 bp):
TTTAATGGAGGTATGCATCAATGCACTACACCATGCATCGATGCATAAATCCTATTCGATGTTTG
TA
Found at i:726508 original size:64 final size:63
Alignment explanation
Indices: 726375--726535 Score: 180
Period size: 64 Copynumber: 2.5 Consensus size: 63
726365 TAATGGAGGT
* * * * *
726375 ATGCATCGATGCACTACACCATGCATCGATGCATAAATCCTATTCGATGTTTGTATTTAATGGGG
1 ATGCATCAATGCACTCCA-TATGCATCGATGCATAAATCCTATTCGATGTTTCTATTTAAT-GGA
* * *
726440 ATGCATCAATGCACTCCTTATGCATCGATGCATAAATCCTATTCGATGTTTTCTTTTTAAAT-TA
1 ATGCATCAATGCACTCCATATGCATCGATGCATAAATCCTATTCGATG-TTTCTATTT-AATGGA
* * *
726504 ATGCATCGATGCACTGCATGTGCATCGATGCA
1 ATGCATCAATGCACTCCATATGCATCGATGCA
726536 CCTTAAACAA
Statistics
Matches: 82, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
64 57 0.70
65 22 0.27
66 3 0.04
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.34
Consensus pattern (63 bp):
ATGCATCAATGCACTCCATATGCATCGATGCATAAATCCTATTCGATGTTTCTATTTAATGGA
Found at i:729721 original size:49 final size:51
Alignment explanation
Indices: 729613--729708 Score: 169
Period size: 51 Copynumber: 1.9 Consensus size: 51
729603 ATACAAAACA
*
729613 CGGTACCTGCCCCGCGCTATATAAAATTATGTCAGGAGTAAAGGTATGTCG
1 CGGTACCTGCCCCGCGCTATATAAAATTATGTCAGGAGTAAAGATATGTCG
729664 CGGTACCTGCCCCGCGCTATATAAAATTAT-T-AGGAGTAAAGATAT
1 CGGTACCTGCCCCGCGCTATATAAAATTATGTCAGGAGTAAAGATAT
729709 AGCGTGTTAC
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
49 13 0.30
50 1 0.02
51 30 0.68
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (51 bp):
CGGTACCTGCCCCGCGCTATATAAAATTATGTCAGGAGTAAAGATATGTCG
Found at i:729728 original size:49 final size:51
Alignment explanation
Indices: 729613--729733 Score: 158
Period size: 49 Copynumber: 2.4 Consensus size: 51
729603 ATACAAAACA
* *
729613 CGGTACCTGCCCCGCGCTATATAAAATTATGTCAGGAGTAAAGGTATGTCG
1 CGGTACCTGACCCGCGCTATATAAAATTATGTCAGGAGTAAAGATATGTCG
*
729664 CGGTACCTGCCCCGCGCTATATAAAATTAT-T-AGGAGTAAAGATATAG-CG
1 CGGTACCTGACCCGCGCTATATAAAATTATGTCAGGAGTAAAGATAT-GTCG
* * *
729713 TGTTACCTGATCCGCGCTATA
1 CGGTACCTGACCCGCGCTATA
729734 CCCCTACGTG
Statistics
Matches: 64, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
49 32 0.50
50 2 0.03
51 30 0.47
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.26
Consensus pattern (51 bp):
CGGTACCTGACCCGCGCTATATAAAATTATGTCAGGAGTAAAGATATGTCG
Found at i:731335 original size:10 final size:10
Alignment explanation
Indices: 731320--731344 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
731310 TATGCATAAG
731320 TTATATATGT
1 TTATATATGT
731330 TTATATATGT
1 TTATATATGT
731340 TTATA
1 TTATA
731345 GTAATTGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (10 bp):
TTATATATGT
Found at i:731599 original size:22 final size:22
Alignment explanation
Indices: 731569--731610 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
731559 AGTCGAGGGT
* *
731569 TTCATAGGTCCTTCGGGACATA
1 TTCACAGGTCCTTAGGGACATA
731591 TTCACAGGTCCTTAGGGACA
1 TTCACAGGTCCTTAGGGACA
731611 AATCTCATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.29
Consensus pattern (22 bp):
TTCACAGGTCCTTAGGGACATA
Found at i:732658 original size:2 final size:2
Alignment explanation
Indices: 732653--732679 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
732643 TATTAGGATG
732653 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
732680 TGCAATTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:733495 original size:13 final size:13
Alignment explanation
Indices: 733477--733506 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
733467 CTTAGTTGCA
733477 AAAATTAAAATTT
1 AAAATTAAAATTT
*
733490 AAAATTGAAATTT
1 AAAATTAAAATTT
733503 AAAA
1 AAAA
733507 ATTCGGTTCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (13 bp):
AAAATTAAAATTT
Found at i:733674 original size:5 final size:5
Alignment explanation
Indices: 733660--733703 Score: 52
Period size: 5 Copynumber: 8.6 Consensus size: 5
733650 TATACCAAAG
* * *
733660 AAATA AAATA CAATA AAATA CAATA AAATTA AAATT AAATA AAA
1 AAATA AAATA AAATA AAATA AAATA AAA-TA AAATA AAATA AAA
733704 AAGAAAGAAG
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
5 27 0.84
6 5 0.16
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.23
Consensus pattern (5 bp):
AAATA
Found at i:733684 original size:15 final size:16
Alignment explanation
Indices: 733660--733703 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
733650 TATACCAAAG
*
733660 AAATAAAATACAA-TA
1 AAATAAAATAAAATTA
*
733675 AAATACAATAAAATTA
1 AAATAAAATAAAATTA
*
733691 AAATTAAATAAAA
1 AAATAAAATAAAA
733704 AAGAAAGAAG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
15 11 0.46
16 13 0.54
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.23
Consensus pattern (16 bp):
AAATAAAATAAAATTA
Found at i:734975 original size:16 final size:16
Alignment explanation
Indices: 734937--734987 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
734927 ACCTGACAAT
*
734937 AAAAATGGAAAATAAA
1 AAAAATAGAAAATAAA
** *
734953 ATTAATAGAAGATAAA
1 AAAAATAGAAAATAAA
734969 AAAAATA-AAAATAAA
1 AAAAATAGAAAATAAA
734984 AAAA
1 AAAA
734988 TAAATAACGA
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
15 11 0.39
16 17 0.61
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (16 bp):
AAAAATAGAAAATAAA
Found at i:735086 original size:36 final size:34
Alignment explanation
Indices: 735034--735318 Score: 121
Period size: 35 Copynumber: 8.2 Consensus size: 34
735024 TTTTCAAAAT
*
735034 TATATAGTTTTTAAAAATGTTCTTAAAATTATATA
1 TATATAGTTTTTAAAAATG-TCTTAAAACTATATA
*
735069 TCATATAGTTTTCAAAAAATGTC--AAAACTATATAA
1 T-ATATAGTTTT-TAAAAATGTCTTAAAACTATAT-A
735104 TATATACGTGTTTTAAAAATG-CTTTAAAAC------
1 TATATA-GT-TTTTAAAAATGTC-TTAAAACTATATA
* * *
735134 TATATA--TTTTCAAAATGTTTTAAAAACTATATA
1 TATATAGTTTTTAAAAATG-TCTTAAAACTATATA
* *
735167 AATATA-TTTTCAAAAATG-CTTTAAAAACTATATA
1 TATATAGTTTTTAAAAATGTC-TT-AAAACTATATA
* * *
735201 T-TATATTTTTTTTAAAATGTTTTAAAAACTATATAA
1 TATATA-GTTTTTAAAAATGTCTT-AAAACTATAT-A
* * *
735237 TATATAAATGTTTTCAAACATGTTTTCAAAACTATATATTA
1 TATAT--A-GTTTTTAAAAATGTCTT-AAAAC--TATA-TA
** * * *
735278 TATATAGTTTAAAAAAATGTTTTCAAACTATACAA
1 TATATAGTTTTTAAAAATGTCTTAAAACTATA-TA
735313 TATATA
1 TATATA
735319 TATATATATA
Statistics
Matches: 195, Mismatches: 26, Indels: 58
0.70 0.09 0.21
Matches are distributed among these distances:
26 10 0.05
27 6 0.03
30 6 0.03
33 10 0.05
34 35 0.18
35 46 0.24
36 17 0.09
37 19 0.10
38 14 0.07
39 21 0.11
41 10 0.05
42 1 0.01
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.43
Consensus pattern (34 bp):
TATATAGTTTTTAAAAATGTCTTAAAACTATATA
Found at i:735109 original size:34 final size:34
Alignment explanation
Indices: 735034--735318 Score: 103
Period size: 34 Copynumber: 8.2 Consensus size: 34
735024 TTTTCAAAAT
* *
735034 TATATAGTTTTTAAAAATGTTCTTAAAATTATATA
1 TATATAGTTTTAAAAAATGTTC-TAAAACTATATA
735069 TCATATAGTTTTCAAAAAATG-TC-AAAACTATATAA
1 T-ATATAGTTTT-AAAAAATGTTCTAAAACTATAT-A
*
735104 TATATACGTGTTTTAAAAATGCTT-TAAAAC------
1 TATATA-GT-TTTAAAAAATG-TTCTAAAACTATATA
* **
735134 TATATA-TTTT-CAAAATGTTTTAAAAACTATATA
1 TATATAGTTTTAAAAAATG-TTCTAAAACTATATA
* * *
735167 AATATATTTTCAAAAA-TGCTT-TAAAAACTATATA
1 TATATAGTTTTAAAAAATG-TTCT-AAAACTATATA
* ** *
735201 T-TATATTTTTTTTAAAATGTTTTAAAAACTATATAA
1 TATATA-GTTTTAAAAAATGTTCT-AAAACTATAT-A
* * *
735237 TATATAAATGTTTTCAAACATGTTTTCAAAACTATATATTA
1 TATAT--A-GTTTTAAAAAATGTTCT-AAAAC--TATA-TA
* * * *
735278 TATATAGTTTAAAAAAATGTTTTCAAACTATACAA
1 TATATAGTTTTAAAAAATGTTCTAAAACTATA-TA
735313 TATATA
1 TATATA
735319 TATATATATA
Statistics
Matches: 196, Mismatches: 26, Indels: 56
0.71 0.09 0.20
Matches are distributed among these distances:
26 8 0.04
27 8 0.04
28 1 0.01
30 6 0.03
33 9 0.05
34 41 0.21
35 40 0.20
36 17 0.09
37 20 0.10
38 14 0.07
39 21 0.11
41 10 0.05
42 1 0.01
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.43
Consensus pattern (34 bp):
TATATAGTTTTAAAAAATGTTCTAAAACTATATA
Found at i:735225 original size:35 final size:35
Alignment explanation
Indices: 735140--735280 Score: 160
Period size: 35 Copynumber: 3.9 Consensus size: 35
735130 AAACTATATA
* *
735140 TTTTCAAAATGTTTTAAAAACTATATA-AATA-TA
1 TTTTCAAAATGTTTTAAAAACTATATATTATATTT
*
735173 TTTTCAAAAATGCTTTAAAAACTATATATTATATTT
1 TTTTC-AAAATGTTTTAAAAACTATATATTATATTT
* * *
735209 TTTTTAAAATGTTTTAAAAACTATATAATATATAAATG
1 TTTTCAAAATGTTTTAAAAACTATAT-AT-TAT-ATTT
*
735247 TTTTCAAACATGTTTTCAAAACTATATATTATAT
1 TTTTCAAA-ATGTTTTAAAAACTATATATTATAT
735281 ATAGTTTAAA
Statistics
Matches: 91, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
33 5 0.05
34 21 0.23
35 23 0.25
36 8 0.09
37 6 0.07
38 11 0.12
39 17 0.19
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.45
Consensus pattern (35 bp):
TTTTCAAAATGTTTTAAAAACTATATATTATATTT
Found at i:735289 original size:74 final size:72
Alignment explanation
Indices: 735134--735318 Score: 216
Period size: 74 Copynumber: 2.6 Consensus size: 72
735124 GCTTTAAAAC
*
735134 TATATATTTTCAAAATGTTTTAAAAACTATATAA-ATAT-ATTTTCAAAAATGCTTTAAAAACTA
1 TATATATTTTAAAAATGTTTTAAAAACTATATAATATATAATTTTCAAAAATGCTTTAAAAACTA
735197 TATATTA
66 TATATTA
* * * * *
735204 TAT-TTTTTTTAAAATGTTTTAAAAACTATATAATATATAAATGTTTTCAAACATGTTTTCAAAA
1 TATATATTTTAAAAATGTTTTAAAAACTATATAATATAT-AA--TTTTCAAAAATGCTTTAAAAA
735268 CTATATATTA
63 CTATATATTA
* * *
735278 TATATAGTTTAAAAAAATGTTTT-CAAACTATACAATATATA
1 TATATA-TTT-TAAAAATGTTTTAAAAACTATATAATATATA
735319 TATATATATA
Statistics
Matches: 97, Mismatches: 10, Indels: 11
0.82 0.08 0.09
Matches are distributed among these distances:
69 28 0.29
70 7 0.07
72 1 0.01
74 31 0.32
75 2 0.02
76 18 0.19
77 10 0.10
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.44
Consensus pattern (72 bp):
TATATATTTTAAAAATGTTTTAAAAACTATATAATATATAATTTTCAAAAATGCTTTAAAAACTA
TATATTA
Found at i:735317 original size:37 final size:38
Alignment explanation
Indices: 735214--735321 Score: 128
Period size: 39 Copynumber: 2.8 Consensus size: 38
735204 TATTTTTTTT
* * **
735214 AAAATGTTTTAAAAACTATATAATATATAAATGTTTTCA
1 AAAATGTTTT-CAAACTATATAATATATATATGTTTAAA
* *
735253 AACATGTTTTCAAAACTATATATTATATATA-GTTTAAA
1 AAAATGTTTTC-AAACTATATAATATATATATGTTTAAA
*
735291 AAAATGTTTTCAAACTATACAATATATATAT
1 AAAATGTTTTCAAACTATATAATATATATAT
735322 ATATATATAT
Statistics
Matches: 58, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
37 17 0.29
38 15 0.26
39 26 0.45
ACGTcount: A:0.47, C:0.07, G:0.05, T:0.41
Consensus pattern (38 bp):
AAAATGTTTTCAAACTATATAATATATATATGTTTAAA
Found at i:735319 original size:2 final size:2
Alignment explanation
Indices: 735312--735350 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
735302 AAACTATACA
*
735312 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
735351 AAAAAGACGA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:736092 original size:84 final size:82
Alignment explanation
Indices: 735943--737227 Score: 1274
Period size: 84 Copynumber: 15.5 Consensus size: 82
735933 ACCTCGAAGT
* * ** * *
735943 TGAGTGTAATCGAACTCGGGGGTCTTT-G-GCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAA
1 TGAGCGTAGTCGAACTCGAAGGTCTTTGGTGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAA
736006 ATGATGTGCCTTGGAGC
66 ATGATGTGCCTTGGAGC
* * * * *
736023 TGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGT
1 TGAGCGTAGTCGAACTCGAAGGTC-TTTGGT-GCAGATAACCCTTCTCGACTTAAGTTATGCTGC
* *
736088 AAATGATGTGCCCTCGAAGC
64 AAATGATGTG-CCTTGGAGC
* * ** * * *
736108 TGAGTGTAATCGAACTCGGGGGTCTTT-G-GCAGATAACCCTTCTCGACTTAAGCTATACTGGAA
1 TGAGCGTAGTCGAACTCGAAGGTCTTTGGTGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAA
736171 ATGATGTGCCGTT-GAGC
66 ATGATGTGCC-TTGGAGC
* * * * *
736188 TGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGC
1 TGAGCGTAGTCGAACTCGAAGGTC-TTTGGT-GCAGATAACCCTTCTCGACTTAAGTTATGCTGC
*
736253 AAATGATATGCCTTGGAGC
64 AAATGATGTGCCTTGGAGC
*
736272 TGAGCATAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGC
1 TGAGCGTAGTCGAACTCGAAGGTCTTTGG-T-GCAGATAACCCTTCTCGACTTAAGTTATGCTGC
*
736337 AAATGATTTGCCGTT-GAGC
64 AAATGATGTGCC-TTGGAGC
* * * * * * *
736356 TGAGCATAGTCGAACTCGACGGTCTTGTGTTGACAGATAACCCTTCTAGTCTTGAGTTATGCTGT
1 TGAGCGTAGTCGAACTCGAAGGTCTT-TGGTG-CAGATAACCCTTCTCGACTTAAGTTATGCTGC
* *
736421 AAATGATGTGCCCTCGAAGC
64 AAATGATGTG-CCTTGGAGC
* * ** * * * *
736441 TGAGTGTAATCGAACTCGGGGGTCTTT-G-GCAGATAGCCCTTCTCGACTTAAGCTATACTGGAA
1 TGAGCGTAGTCGAACTCGAAGGTCTTTGGTGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAA
736504 ATGATGTGCCGTT-GAGC
66 ATGATGTGCC-TTGGAGC
* * * * *
736521 TGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGC
1 TGAGCGTAGTCGAACTCGAAGGTC-TTTGGT-GCAGATAACCCTTCTCGACTTAAGTTATGCTGC
* *
736586 AAATTATATGCCTTGGAGC
64 AAATGATGTGCCTTGGAGC
* *
736605 TGAGCATAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGT
1 TGAGCGTAGTCGAACTCGAAGGTCTTTGG-T-GCAGATAACCCTTCTCGACTTAAGTTATGCTGC
*
736670 AAATGATTTGCCGTT-GAGC
64 AAATGATGTGCC-TTGGAGC
* * * * * *
736689 TGAGCGTAGTCGAACTCGACGGTCTTGTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGT
1 TGAGCGTAGTCGAACTCGAAGGTCTT-TGGTG-CAGATAACCCTTCTCGACTTAAGTTATGCTGC
* *
736754 AAATGATGTGCCCTCGAAGC
64 AAATGATGTG-CCTTGGAGC
* * ** * * *
736774 TGAGTGTAATCGAACTCGGGGGTCTTT-G-GCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAA
1 TGAGCGTAGTCGAACTCGAAGGTCTTTGGTGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAA
*
736837 ATGATATGCCTTGGAGC
66 ATGATGTGCCTTGGAGC
*
736854 TGAGCGTAGTCGAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGC
1 TGAGCGTAGTCGAACTCGAAGGTCTTTGG-T-GCAGATAACCCTTCTCGACTTAAGTTATGCTGC
* *
736919 AAATGATGTGCCCTCGAAGC
64 AAATGATGTG-CCTTGGAGC
* * ** * ** * *
736939 TGAGTGTAATCGAACTCGGGGGTCTTT-G-GCAGATAGCCCTTCTTAACTTAAGCTATTCTGCAA
1 TGAGCGTAGTCGAACTCGAAGGTCTTTGGTGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAA
737002 ATGATGTGCCTTGGAGC
66 ATGATGTGCCTTGGAGC
* * * * * * * *
737019 TAAGCGTAGTCGAACTCAAAGGTCTTTGCTAACAGATAACCCTTCTAGCCTTGAGTTATGCTGTA
1 TGAGCGTAGTCGAACTCGAAGGTCTTTGGT-GCAGATAACCCTTCTCGACTTAAGTTATGCTGCA
* * *
737084 AATGTTATGCCCTTGAAGC
65 AATGATGTG-CCTTGGAGC
* * * * * *
737103 TGAGTGTAATTGAACT-TAAGGGTCTTT-G-GCAGATAGCCCTTCTCGACTTAAGTTATTCTGCA
1 TGAGCGTAGTCGAACTCGAA-GGTCTTTGGTGCAGATAACCCTTCTCGACTTAAGTTATGCTGCA
737165 AATGATGTGCCTTGGAGC
65 AATGATGTGCCTTGGAGC
* *
737183 TGAGCGTAGTCGAACTCGAAGGTC-TTGGTGGCAGGTAGCCCTTCT
1 TGAGCGTAGTCGAACTCGAAGGTCTTTGGT-GCAGATAACCCTTCT
737228 GGCCTTGAGC
Statistics
Matches: 981, Mismatches: 181, Indels: 84
0.79 0.15 0.07
Matches are distributed among these distances:
79 2 0.00
80 151 0.15
81 191 0.19
82 17 0.02
83 49 0.05
84 454 0.46
85 117 0.12
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.30
Consensus pattern (82 bp):
TGAGCGTAGTCGAACTCGAAGGTCTTTGGTGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAA
ATGATGTGCCTTGGAGC
Found at i:736175 original size:165 final size:165
Alignment explanation
Indices: 735882--737208 Score: 1732
Period size: 165 Copynumber: 8.0 Consensus size: 165
735872 AACTCGACAA
* * * * * * * *
735882 TTTTATTGACAAATAACCCTTATTGCCTTGAGTTATGTTGTAAACGATATGACCTCGAAGTTGAG
1 TTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTCGAAGCTGAG
735947 TGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATG
66 TGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATG
*
736012 TGCC-TTGGAGCTGAGCGTAGTCGAACTCGAAGGTC
131 TGCCGTT-GAGCTGAGCGTAGTCGAACTCAAAGGTC
* * *
736047 TTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAG
1 TTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTCGAAGCTGAG
* * *
736112 TGTAATCGAACTCGGGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATACTGGAAATGATG
66 TGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATG
736177 TGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTC
131 TGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTC
* * * * * * * *
736212 TTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATG-CCTTGGAGCTGAG
1 TTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTCGAAGCTGAG
** * ** * *
736276 CATAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAAT
66 TGTAATCGAACTCGGGGGTC--T--TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAAT
* * * *
736341 GATTTGCCGTTGAGCTGAGCATAGTCGAACTCGACGGTC
127 GATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTC
* * *
736380 TTGTGTTGACAGATAACCCTTCTAGTCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAG
1 TTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTCGAAGCTGAG
* *
736445 TGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGGAAATGATG
66 TGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATG
736510 TGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTC
131 TGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTC
* * * * * * * * *
736545 TTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATTATATG-CCTTGGAGCTGAG
1 TTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTCGAAGCTGAG
** * ** * * *
736609 CATAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGTAAAT
66 TGTAATCGAACTCGGGGGTC--T--TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAAT
* * *
736674 GATTTGCCGTTGAGCTGAGCGTAGTCGAACTCGACGGTC
127 GATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTC
* *
736713 TTGTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAG
1 TTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTCGAAGCTGAG
* *
736778 TGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATA
66 TGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATG
736843 TGCC-TTGGAGCTGAGCGTAGTCGAACTCAAAGGTC
131 TGCCGTT-GAGCTGAGCGTAGTCGAACTCAAAGGTC
* * * * * * *
736878 TTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAG
1 TTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTCGAAGCTGAG
** *
736943 TGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTTAACTTAAGCTATTCTGCAAATGATG
66 TGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATG
*
737008 TGCC-TTGGAGCTAAGCGTAGTCGAACTCAAAGGTC
131 TGCCGTT-GAGCTGAGCGTAGTCGAACTCAAAGGTC
* * * *
737043 -TTTGCTAACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGTTATGCCCTTGAAGCTGAG
1 TTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTCGAAGCTGAG
* *** * *
737107 TGTAATTGAACTTAAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGTTATTCTGCAAATGATG
66 TGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATG
*
737172 TGCC-TTGGAGCTGAGCGTAGTCGAACTCGAAGGTC
131 TGCCGTT-GAGCTGAGCGTAGTCGAACTCAAAGGTC
737207 TT
1 TT
737209 GGTGGCAGGT
Statistics
Matches: 1011, Mismatches: 138, Indels: 26
0.86 0.12 0.02
Matches are distributed among these distances:
164 198 0.20
165 526 0.52
166 4 0.00
167 2 0.00
168 229 0.23
169 52 0.05
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (165 bp):
TTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTCGAAGCTGAG
TGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATG
TGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTC
Found at i:736574 original size:333 final size:333
Alignment explanation
Indices: 735968--737208 Score: 1933
Period size: 333 Copynumber: 3.7 Consensus size: 333
735958 TCGGGGGTCT
*
735968 TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGT
1 TTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGT
* * *
736033 CGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTG
66 CGAACTCGAAGGTCTTGTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTG
*
736098 CCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTA
131 CCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTA
*
736163 TACTGGAAATGATGTGCCGTT-GAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGACA
196 TACTGCAAATGATGTGCC-TTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGACA
736227 ACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTGAGCATAGTCGAACTCGAA
260 ACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTGAGCATAGTCGAACTCGAA
736292 GGTCTTTGG
325 GGTCTTTGG
* * *
736301 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATTTGCCGTT-GAGCTGAGCATAG
1 TTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCC-TTGGAGCTGAGCGTAG
* *
736365 TCGAACTCGACGGTCTTGTGTTGACAGATAACCCTTCTAGTCTTGAGTTATGCTGTAAATGATGT
65 TCGAACTCGAAGGTCTTGTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGT
736430 GCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCT
130 GCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCT
*
736495 ATACTGGAAATGATGTGCCGTT-GAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGAC
195 ATACTGCAAATGATGTGCC-TTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGAC
*
736559 AACCCTTCTAGACTTAAGTTGTGCTGCAAATTATATGCCTTGGAGCTGAGCATAGTCGAACTCGA
259 AACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTGAGCATAGTCGAACTCGA
736624 AGGTCTTTGG
324 AGGTCTTTGG
* * *
736634 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGTAAATGATTTGCCGTT-GAGCTGAGCGTAG
1 TTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCC-TTGGAGCTGAGCGTAG
*
736698 TCGAACTCGACGGTCTTGTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGT
65 TCGAACTCGAAGGTCTTGTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGT
736763 GCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCT
130 GCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCT
* * * *
736828 ATTCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTTGGCAGATA
195 ATACTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGACA
* * * * * ** * *
736893 ACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGG
260 ACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATG-CCTTGGAGCTGAGCATAGTCGAACTCGA
*
736958 GGGTC--T--
324 AGGTCTTTGG
* ** * *
736964 TTGGCAGATAGCCCTTCTTAACTTAAGCTATTCTGCAAATGATGTGCCTTGGAGCTAAGCGTAGT
1 TTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGT
* * * * *
737029 CGAACTCAAAGGTCTT-TGCTAACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGTTATG
66 CGAACTCGAAGGTCTTGTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTG
* * *** *
737093 CCCTTGAAGCTGAGTGTAATTGAACTTAAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGTTA
131 CCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTA
* *
737158 TTCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTT
196 TACTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTT
737209 GGTGGCAGGT
Statistics
Matches: 852, Mismatches: 52, Indels: 12
0.93 0.06 0.01
Matches are distributed among these distances:
329 154 0.18
330 68 0.08
332 3 0.00
333 599 0.70
334 28 0.03
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (333 bp):
TTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGT
CGAACTCGAAGGTCTTGTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTG
CCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTA
TACTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGACAA
CCCTTCTAGACTTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTGAGCATAGTCGAACTCGAAG
GTCTTTGG
Found at i:740511 original size:19 final size:20
Alignment explanation
Indices: 740487--740533 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
740477 AGTTAATGTG
* *
740487 AATGCAGAGAAAAT-AACAA
1 AATGCAAAGAAAATAAAAAA
740506 AATGCAAAGAAAATAAAAAA
1 AATGCAAAGAAAATAAAAAA
740526 AATGCAAA
1 AATGCAAA
740534 ATGTCTATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 13 0.52
20 12 0.48
ACGTcount: A:0.68, C:0.09, G:0.13, T:0.11
Consensus pattern (20 bp):
AATGCAAAGAAAATAAAAAA
Found at i:742239 original size:13 final size:13
Alignment explanation
Indices: 742221--742250 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
742211 CTTAGTTGCG
742221 AAAATTAAAATTT
1 AAAATTAAAATTT
*
742234 AAAATTGAAATTT
1 AAAATTAAAATTT
742247 AAAA
1 AAAA
742251 ATTTGGTTCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (13 bp):
AAAATTAAAATTT
Found at i:743882 original size:59 final size:59
Alignment explanation
Indices: 743819--743962 Score: 170
Period size: 59 Copynumber: 2.4 Consensus size: 59
743809 AAATAATGTC
743819 AAAACTATAATATACGTGTTTAAAAATGCTTTAAAAACTATATAT-T-TCAAA-ATGTTTTA
1 AAAACTATAATATA--TGTTTAAAAATGCTTTAAAAACTATATATATAT-AAATATGTTTTA
* * *
743878 AAAACTATATATATTTAT-TTTTAAAATGTTTTAAAAACTATATATATATAAATATGTTTTC
1 AAAACTATA-ATA--TATGTTTAAAAATGCTTTAAAAACTATATATATATAAATATGTTTTA
*
743939 AAAACTATATTATATGTTTAAAAA
1 AAAACTATAATATATGTTTAAAAA
743963 AAATGTTTTC
Statistics
Matches: 73, Mismatches: 5, Indels: 14
0.79 0.05 0.15
Matches are distributed among these distances:
58 3 0.04
59 41 0.56
60 10 0.14
61 17 0.23
62 2 0.03
ACGTcount: A:0.47, C:0.06, G:0.05, T:0.42
Consensus pattern (59 bp):
AAAACTATAATATATGTTTAAAAATGCTTTAAAAACTATATATATATAAATATGTTTTA
Found at i:743953 original size:27 final size:27
Alignment explanation
Indices: 743841--743891 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
743831 TACGTGTTTA
*
743841 AAAATGCTTTAAAAACTATATAT-T-T
1 AAAATGTTTTAAAAACTATATATATAT
743866 CAAAATGTTTTAAAAACTATATATAT
1 -AAAATGTTTTAAAAACTATATATAT
743892 TTATTTTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 22 0.96
27 1 0.04
ACGTcount: A:0.49, C:0.08, G:0.04, T:0.39
Consensus pattern (27 bp):
AAAATGTTTTAAAAACTATATATATAT
Found at i:743953 original size:33 final size:32
Alignment explanation
Indices: 743914--743998 Score: 89
Period size: 33 Copynumber: 2.6 Consensus size: 32
743904 TGTTTTAAAA
743914 ACTATATATATATAAATATGTTTTCAAAACTAT
1 ACTATATATATATAAATATGTTTTC-AAACTAT
* * * * *
743947 ATTATATGTTTAAAAAAAATGTTTTCAAACTAT
1 ACTATATATAT-ATAAATATGTTTTCAAACTAT
* *
743980 ACAATATATATATATATAT
1 ACTATATATATATAAATAT
743999 ATATATATAT
Statistics
Matches: 39, Mismatches: 12, Indels: 3
0.72 0.22 0.06
Matches are distributed among these distances:
32 5 0.13
33 22 0.56
34 12 0.31
ACGTcount: A:0.47, C:0.07, G:0.04, T:0.42
Consensus pattern (32 bp):
ACTATATATATATAAATATGTTTTCAAACTAT
Found at i:743990 original size:2 final size:2
Alignment explanation
Indices: 743983--744037 Score: 92
Period size: 2 Copynumber: 27.5 Consensus size: 2
743973 AAACTATACA
743983 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
744025 GT AT GT AT AT AT A
1 AT AT AT AT AT AT A
744038 AAAAAGACGA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (2 bp):
AT
Found at i:744750 original size:20 final size:20
Alignment explanation
Indices: 744656--745004 Score: 418
Period size: 20 Copynumber: 17.4 Consensus size: 20
744646 GATTTTCCAT
* ** *
744656 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
744676 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
744696 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
744716 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
744736 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
744756 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
744776 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
744796 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
744816 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
744836 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
744856 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
744876 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
744896 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
744916 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
744936 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
744956 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
744976 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
744996 AATCACAAC
1 AATCGCAAC
745005 ACTGAAATTT
Statistics
Matches: 285, Mismatches: 36, Indels: 16
0.85 0.11 0.05
Matches are distributed among these distances:
19 3 0.01
20 279 0.98
21 3 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:745724 original size:24 final size:24
Alignment explanation
Indices: 745685--745731 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
745675 AAATTTGGTC
745685 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
745709 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
745732 GATGTTCAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:745921 original size:12 final size:12
Alignment explanation
Indices: 745904--745928 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
745894 ATATAATCCT
745904 GAAGAAGAAAAA
1 GAAGAAGAAAAA
745916 GAAGAAGAAAAA
1 GAAGAAGAAAAA
745928 G
1 G
745929 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:748214 original size:19 final size:19
Alignment explanation
Indices: 748192--748512 Score: 360
Period size: 19 Copynumber: 18.4 Consensus size: 19
748182 CGGAAAATAC
*
748192 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
748211 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
748225 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
748245 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
748259 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
748278 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
748297 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
*
748311 AATCACAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
748330 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
748349 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
748368 AATCGCAA--CGACA-G--
1 AATCGCAATGCGAAATGAA
*
748382 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
748401 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
748420 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
748434 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
748453 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
748467 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
748486 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
748505 AATCGCAA
1 AATCGCAA
748513 CGAGATAATC
Statistics
Matches: 259, Mismatches: 12, Indels: 62
0.78 0.04 0.19
Matches are distributed among these distances:
14 55 0.21
15 2 0.01
16 22 0.08
17 20 0.08
18 3 0.01
19 144 0.56
20 13 0.05
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:748279 original size:33 final size:33
Alignment explanation
Indices: 748192--748493 Score: 248
Period size: 33 Copynumber: 8.8 Consensus size: 33
748182 CGGAAAATAC
* *
748192 AATCGCAACGCGAAATGAAAATCCCAAC-ATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGA-GAA
*
748225 AATCGCAATGCGGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGC-GAAATGAAAATCGCAACGAGAA
748259 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAA
* * * *
748297 AATCGCAACGAGAGAATCACAAT-GCGAA--ATGAA
1 AATCGCAATGCGA-AATGAAAATCGC-AACGA-GAA
748330 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAA
* *
748368 AATCGCAA--CGACA-G--AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAA
748401 AATCGCAATGCGAAATGAAAATCGCAACGA-AA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAA
748433 GAATCGCAATGCGAAATGAAAATCGCAACGA-AA
1 -AATCGCAATGCGAAATGAAAATCGCAACGAGAA
748466 GAATCGCAATGCGAAATGAAAATCGCAA
1 -AATCGCAATGCGAAATGAAAATCGCAA
748494 TGCGAAATGA
Statistics
Matches: 232, Mismatches: 15, Indels: 44
0.80 0.05 0.15
Matches are distributed among these distances:
32 11 0.05
33 130 0.56
34 30 0.13
35 8 0.03
36 7 0.03
37 1 0.00
38 36 0.16
39 9 0.04
ACGTcount: A:0.47, C:0.19, G:0.21, T:0.14
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAA
Found at i:748439 original size:14 final size:14
Alignment explanation
Indices: 748420--748474 Score: 65
Period size: 14 Copynumber: 3.6 Consensus size: 14
748410 GCGAAATGAA
748420 AATCGCAACGAAAG
1 AATCGCAACGAAAG
748434 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
748451 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
748467 AATCGCAA
1 AATCGCAA
748475 TGCGAAATGA
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
14 16 0.44
16 6 0.17
17 6 0.17
19 8 0.22
ACGTcount: A:0.49, C:0.20, G:0.20, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:748550 original size:52 final size:52
Alignment explanation
Indices: 748220--748534 Score: 403
Period size: 52 Copynumber: 6.0 Consensus size: 52
748210 AAATCCCAAC
748220 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
*
748273 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCACAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
* * * *
748325 ATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGA-AAT-GAAAAT-CGCA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCG-CAATGCGAA
* * *
748375 ACGACAGAATCGCAATGCGAAATTAAAATCGCAATGCGAAATGAAAATCGCAA--CGAA
1 ATGA-A-AATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAGAATCGCAATGCGAA
*
748432 A-G--AATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
*
748481 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
748533 AT
1 AT
748535 TATAAACGCA
Statistics
Matches: 230, Mismatches: 17, Indels: 31
0.83 0.06 0.11
Matches are distributed among these distances:
47 9 0.04
48 1 0.00
49 5 0.02
50 9 0.04
51 7 0.03
52 169 0.73
53 16 0.07
54 1 0.00
56 1 0.00
57 6 0.03
58 5 0.02
59 1 0.00
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.14
Consensus pattern (52 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
Found at i:748650 original size:19 final size:19
Alignment explanation
Indices: 748541--748642 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
748531 AAATTATAAA
748541 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
748560 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
748580 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
748596 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
748613 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
748632 CGCATTGCGAT
1 CGCATTGCGAT
748643 AGTCATTTTT
Statistics
Matches: 75, Mismatches: 2, Indels: 11
0.85 0.02 0.12
Matches are distributed among these distances:
14 6 0.08
16 7 0.09
17 7 0.09
19 36 0.48
20 19 0.25
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.44
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:748768 original size:14 final size:14
Alignment explanation
Indices: 748749--748785 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
748739 CATCAATTAC
748749 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
748763 ACAAATCATCTTTT
1 ACAAATCAACTTTT
748777 ACAAATCAA
1 ACAAATCAA
748786 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:750116 original size:14 final size:14
Alignment explanation
Indices: 750097--750184 Score: 77
Period size: 14 Copynumber: 5.6 Consensus size: 14
750087 TTGAAATGAA
750097 AATCGCAACGAGAG
1 AATCGCAACGAGAG
750111 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
750128 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
750144 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
750163 AATCGCAACGAGAG
1 AATCGCAACGAGAG
750177 AATCGCAA
1 AATCGCAA
750185 TGCGAAATGA
Statistics
Matches: 62, Mismatches: 2, Indels: 20
0.74 0.02 0.24
Matches are distributed among these distances:
14 26 0.42
15 1 0.02
16 8 0.13
17 8 0.13
18 1 0.02
19 18 0.29
ACGTcount: A:0.43, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:750134 original size:33 final size:33
Alignment explanation
Indices: 750089--750203 Score: 203
Period size: 33 Copynumber: 3.5 Consensus size: 33
750079 TCTTTTGGTT
750089 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
750122 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
750155 GAAATGAAAATCGCAACGAGAGAATCGCAATGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
750188 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
750204 TGCGATTTTG
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 77 1.00
ACGTcount: A:0.45, C:0.20, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:750135 original size:19 final size:18
Alignment explanation
Indices: 750096--750208 Score: 79
Period size: 19 Copynumber: 6.8 Consensus size: 18
750086 GTTGAAATGA
750096 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
750111 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
750128 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
750144 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
750161 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
* *
750177 -AATCGCAATGCGAAATG
1 AAATCGCAACGCGAGATG
*
750194 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
750209 TTTTGGTTTC
Statistics
Matches: 80, Mismatches: 3, Indels: 26
0.73 0.03 0.24
Matches are distributed among these distances:
14 24 0.30
16 15 0.19
17 12 0.15
19 29 0.36
ACGTcount: A:0.43, C:0.21, G:0.25, T:0.11
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:750239 original size:14 final size:14
Alignment explanation
Indices: 750220--750274 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
750210 TTTGGTTTCG
750220 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
750234 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
750253 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
750267 CGTTGCGA
1 CGTTGCGA
750275 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.09, C:0.25, G:0.24, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:750252 original size:33 final size:33
Alignment explanation
Indices: 750204--750274 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
750194 AAAATCGCAA
**
750204 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
750237 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
750270 TGCGA
1 TGCGA
750275 CAGTCATTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.08, C:0.23, G:0.25, T:0.44
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:750282 original size:33 final size:33
Alignment explanation
Indices: 750215--750296 Score: 119
Period size: 33 Copynumber: 2.5 Consensus size: 33
750205 GCGATTTTGG
***
750215 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
750248 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
*
750281 TTCTCTCGTTGCGATT
1 TT-TCGCGTTGCGATT
750297 TTCATTTATC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 32 0.73
34 12 0.27
ACGTcount: A:0.10, C:0.26, G:0.22, T:0.43
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
Found at i:750301 original size:20 final size:20
Alignment explanation
Indices: 750227--750315 Score: 75
Period size: 20 Copynumber: 4.8 Consensus size: 20
750217 TCGCGTTGCG
750227 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
750247 ATT-TCGCGTTGCG------
1 ATTCTCTCGTTGCGATTTTC
***
750260 ATTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTC
750280 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
750300 ATTTATCTCGTTGCGA
1 A-TTCTCTCGTTGCGA
750316 CTCTCTGCAA
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
13 3 0.05
14 9 0.16
19 9 0.16
20 21 0.38
21 13 0.24
ACGTcount: A:0.12, C:0.25, G:0.19, T:0.44
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:750436 original size:33 final size:33
Alignment explanation
Indices: 750394--750464 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
750384 AATACTAACT
*
750394 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
750427 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
750460 TGAAA
1 TGAAA
750465 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Done.