Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001129.1 Hibiscus syriacus cultivar Beakdansim tig00002237_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: 21326069
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 89
Found at i:1674879 original size:33 final size:33
Alignment explanation
Indices: 1674837--1674924 Score: 160
Period size: 32 Copynumber: 2.7 Consensus size: 33
1674827 GGAAATAGCT
1674837 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1674870 ATCGCAATGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
1674902 ATCGCAACGCGAAATGAAAATCG
1 ATCGCAATGCGAAATGAAAATCG
1674925 TAATGCGATT
Statistics
Matches: 53, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
32 31 0.58
33 22 0.42
ACGTcount: A:0.47, C:0.22, G:0.19, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:1674989 original size:20 final size:19
Alignment explanation
Indices: 1674939--1674998 Score: 77
Period size: 20 Copynumber: 3.2 Consensus size: 19
1674929 GCGATTTGTG
*
1674939 TTTCGCGTTGCGAT-TTCA
1 TTTCGCGTTGCGATAGTCA
* *
1674957 TTTCGCATTGCGATAGCCA
1 TTTCGCGTTGCGATAGTCA
1674976 TTTCCGCGTTGCGATAGTCA
1 TTT-CGCGTTGCGATAGTCA
1674996 TTT
1 TTT
1674999 TCGTGTTGCT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
18 13 0.37
19 5 0.14
20 17 0.49
ACGTcount: A:0.15, C:0.23, G:0.22, T:0.40
Consensus pattern (19 bp):
TTTCGCGTTGCGATAGTCA
Found at i:1675448 original size:41 final size:42
Alignment explanation
Indices: 1675352--1675439 Score: 124
Period size: 41 Copynumber: 2.1 Consensus size: 42
1675342 GACTCACCTG
* *
1675352 TCATCCCTCAAGAGTCCCCTCCAATCGTTCAAGAGGCCCCTA
1 TCATCCCTCAAGAGTCCCCTCCAACCGTTCAAGAGGCCACTA
* * *
1675394 TCCTCCCTCAAGAGTCCCC-CCCACCGTTCAAGAGGCCACTG
1 TCATCCCTCAAGAGTCCCCTCCAACCGTTCAAGAGGCCACTA
1675435 TCATC
1 TCATC
1675440 GTTGAAGAGG
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
41 22 0.55
42 18 0.45
ACGTcount: A:0.22, C:0.43, G:0.15, T:0.20
Consensus pattern (42 bp):
TCATCCCTCAAGAGTCCCCTCCAACCGTTCAAGAGGCCACTA
Found at i:1677006 original size:19 final size:17
Alignment explanation
Indices: 1676981--1677030 Score: 61
Period size: 14 Copynumber: 3.0 Consensus size: 17
1676971 ATGATGTACG
1676981 AGAAAATCGCAATGCGAA
1 AGAAAATCGCAATGCG-A
1676999 ATGAAAATCGCAA--CG-
1 A-GAAAATCGCAATGCGA
1677014 AGAAAATCGCAATGCGA
1 AGAAAATCGCAATGCGA
1677031 TTTTCATTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
14 11 0.39
15 1 0.04
16 2 0.07
17 2 0.07
18 1 0.04
19 11 0.39
ACGTcount: A:0.48, C:0.18, G:0.22, T:0.12
Consensus pattern (17 bp):
AGAAAATCGCAATGCGA
Found at i:1677322 original size:20 final size:20
Alignment explanation
Indices: 1677297--1677408 Score: 73
Period size: 20 Copynumber: 5.5 Consensus size: 20
1677287 TTTGAAGATT
*
1677297 ATTGCGATTTTTAGAATCTC
1 ATTGCGATTTTCAGAATCTC
***
1677317 ATTGCGAAAGTCAGAATCTC
1 ATTGCGATTTTCAGAATCTC
* * **
1677337 GTTGCGATTTTGTATTATCTC
1 ATTGCGATTTT-CAGAATCTC
* * * *
1677358 GTTGCGATTGTCAGTATCGC
1 ATTGCGATTTTCAGAATCTC
*
1677378 ATTGCGATTTTCCA-AATTCGC
1 ATTGCGATTTT-CAGAA-TCTC
1677399 ATTGCGATTT
1 ATTGCGATTT
1677409 ACTTATTCGC
Statistics
Matches: 71, Mismatches: 18, Indels: 5
0.76 0.19 0.05
Matches are distributed among these distances:
20 39 0.55
21 32 0.45
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.40
Consensus pattern (20 bp):
ATTGCGATTTTCAGAATCTC
Found at i:1677363 original size:41 final size:40
Alignment explanation
Indices: 1677297--1677388 Score: 103
Period size: 41 Copynumber: 2.3 Consensus size: 40
1677287 TTTGAAGATT
*
1677297 ATTGCGATTTTTAGAATCTCATTGCGAAAGTCAGAATCTC
1 ATTGCGATTTTTAGAATCTCATTGCGAAAGTCAGAATCGC
* ** * ** *
1677337 GTTGCGATTTTGTATTATCTCGTTGCGATTGTCAGTATCGC
1 ATTGCGATTTT-TAGAATCTCATTGCGAAAGTCAGAATCGC
1677378 ATTGCGATTTT
1 ATTGCGATTTT
1677389 CCAAATTCGC
Statistics
Matches: 42, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
40 10 0.24
41 32 0.76
ACGTcount: A:0.22, C:0.16, G:0.21, T:0.41
Consensus pattern (40 bp):
ATTGCGATTTTTAGAATCTCATTGCGAAAGTCAGAATCGC
Found at i:1677418 original size:20 final size:21
Alignment explanation
Indices: 1677374--1677425 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
1677364 ATTGTCAGTA
*
1677374 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTACAAAT
**
1677395 TCGCATTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTACAAAT
1677415 TCGCATTGCGA
1 TCGCATTGCGA
1677426 ATTAGGAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTACAAAT
Found at i:1677641 original size:12 final size:12
Alignment explanation
Indices: 1677622--1677655 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
1677612 CTCTCCGGCG
1677622 ACATCCGTTCCT
1 ACATCCGTTCCT
*
1677634 ATATCCGTTCCT
1 ACATCCGTTCCT
1677646 ACATCC-TTCC
1 ACATCCGTTCC
1677656 CCATCCGGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 4 0.20
12 16 0.80
ACGTcount: A:0.18, C:0.41, G:0.06, T:0.35
Consensus pattern (12 bp):
ACATCCGTTCCT
Found at i:1678237 original size:24 final size:24
Alignment explanation
Indices: 1678210--1678263 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
1678200 GTATTCGAAA
*
1678210 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACCCGGAC
* *
1678234 TTTGATATTGGTCAATACTCGGAT
1 TTTGATATTGGTCAATACCCGGAC
1678258 TTTGAT
1 TTTGAT
1678264 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATATTGGTCAATACCCGGAC
Found at i:1680779 original size:19 final size:19
Alignment explanation
Indices: 1680757--1680873 Score: 110
Period size: 19 Copynumber: 6.7 Consensus size: 19
1680747 GGAAATTACT
1680757 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
1680776 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
1680795 ATCGCAATGC----T-AAT
1 ATCGCAATGCGAAATGAAA
* *
1680809 TTTGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
1680828 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
1680842 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
1680861 ATCGCAACGCGAA
1 ATCGCAATGCGAA
1680874 TTTAATTTCG
Statistics
Matches: 77, Mismatches: 11, Indels: 20
0.71 0.10 0.19
Matches are distributed among these distances:
14 19 0.25
15 2 0.03
16 2 0.03
17 2 0.03
18 2 0.03
19 50 0.65
ACGTcount: A:0.43, C:0.18, G:0.22, T:0.17
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:1680849 original size:33 final size:33
Alignment explanation
Indices: 1680775--1680869 Score: 122
Period size: 33 Copynumber: 2.9 Consensus size: 33
1680765 GCGAAATGAA
* *
1680775 AATCGCAATGCGAAATGAAAATCGCAA--TGCT
1 AATCGCAATGCGAAATGAAAATCGCAACGAGCG
* *
1680806 AATTTTGCAATGCGAAATGAAAATCGCAACGAGGG
1 AA--TCGCAATGCGAAATGAAAATCGCAACGAGCG
1680841 AATCGCAATGCGAAATGAAAATCGCAACG
1 AATCGCAATGCGAAATGAAAATCGCAACG
1680870 CGAATTTAAT
Statistics
Matches: 55, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
31 2 0.04
33 50 0.91
35 3 0.05
ACGTcount: A:0.42, C:0.18, G:0.22, T:0.18
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGCG
Found at i:1680891 original size:19 final size:19
Alignment explanation
Indices: 1680869--1680910 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
1680859 AAATCGCAAC
1680869 GCGAATTTAATTTCGCGTT
1 GCGAATTTAATTTCGCGTT
* *
1680888 GCGATTTTCATTTCGCGTT
1 GCGAATTTAATTTCGCGTT
1680907 GCGA
1 GCGA
1680911 TTCTCTCGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.17, C:0.19, G:0.24, T:0.40
Consensus pattern (19 bp):
GCGAATTTAATTTCGCGTT
Found at i:1680911 original size:19 final size:19
Alignment explanation
Indices: 1680878--1680943 Score: 72
Period size: 19 Copynumber: 3.8 Consensus size: 19
1680868 CGCGAATTTA
1680878 ATTTCGCGTTGCGATTTTC
1 ATTTCGCGTTGCGATTTTC
1680897 ATTTCGCGTTGCGA--TTC
1 ATTTCGCGTTGCGATTTTC
*
1680914 ---TCTCGTTGCGATTTT-
1 ATTTCGCGTTGCGATTTTC
*
1680929 ATTTCGCATTGCGAT
1 ATTTCGCGTTGCGAT
1680944 AGTACTTTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 11
0.74 0.06 0.21
Matches are distributed among these distances:
14 10 0.26
16 2 0.05
17 3 0.08
18 10 0.26
19 14 0.36
ACGTcount: A:0.12, C:0.21, G:0.21, T:0.45
Consensus pattern (19 bp):
ATTTCGCGTTGCGATTTTC
Found at i:1681069 original size:14 final size:14
Alignment explanation
Indices: 1681050--1681086 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
1681040 CATCAATTAA
1681050 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
1681064 ACAAATCACCTTTT
1 ACAAATCAACTTTT
1681078 ACAAATCAA
1 ACAAATCAA
1681087 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:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:1682374 original size:21 final size:21
Alignment explanation
Indices: 1682350--1682458 Score: 51
Period size: 21 Copynumber: 5.2 Consensus size: 21
1682340 GGACCTCTGC
1682350 AACGATGACAGTGGCCTCTTG
1 AACGATGACAGTGGCCTCTTG
* ** * * *
1682371 AACGGTGGGAGGGGACTCTCG
1 AACGATGACAGTGGCCTCTTG
* * * * *
1682392 -AGGAATTATAGGGGCCTCTTC
1 AACG-ATGACAGTGGCCTCTTG
* *
1682413 AACGAT-AGGAGTGGACTCTTG
1 AACGATGA-CAGTGGCCTCTTG
**
1682434 AGGGATGACAGTGGCCTCTTG
1 AACGATGACAGTGGCCTCTTG
1682455 AACG
1 AACG
1682459 GTGGGAGGGG
Statistics
Matches: 59, Mismatches: 25, Indels: 8
0.64 0.27 0.09
Matches are distributed among these distances:
20 3 0.05
21 53 0.90
22 3 0.05
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (21 bp):
AACGATGACAGTGGCCTCTTG
Found at i:1682382 original size:42 final size:41
Alignment explanation
Indices: 1682323--1682528 Score: 150
Period size: 42 Copynumber: 4.9 Consensus size: 41
1682313 GTGAATCGGG
* *
1682323 CTCTTGAATGGTGGGAGGGACCTCTGCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGA-CTCTGCAAGGATGACAGTGGC
* * * *
1682365 CTCTTGAACGGTGGGAGGGGACTCT-CGAGGAATTATAGGGGC
1 CTCTTGAACGGTGGGA-GGGACTCTGCAAGG-ATGACAGTGGC
* * * *
1682407 CTCTTCAACGATAGGAGTGGACTCTTG-AGGGATGACAGTGGC
1 CTCTTGAACGGTGGGAG-GGACTC-TGCAAGGATGACAGTGGC
* * *
1682449 CTCTTGAACGGTGGGAGGGGACTCT-CGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGA-GGGACTCTGCAAGG-ATGACAGTGGC
* * * *
1682491 CTCTTCAACGATAGGAGTGGACTCTTG-AGGGATGACAG
1 CTCTTGAACGGTGGGAG-GGACTC-TGCAAGGATGACAG
1682529 GCGAGTCGGG
Statistics
Matches: 126, Mismatches: 27, Indels: 22
0.72 0.15 0.13
Matches are distributed among these distances:
41 8 0.06
42 107 0.85
43 11 0.09
ACGTcount: A:0.23, C:0.18, G:0.37, T:0.22
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGACTCTGCAAGGATGACAGTGGC
Found at i:1682464 original size:84 final size:84
Alignment explanation
Indices: 1682353--1682528 Score: 343
Period size: 84 Copynumber: 2.1 Consensus size: 84
1682343 CCTCTGCAAC
*
1682353 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATTATAGGGGCCTCTTCAACGA
1 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
1682418 TAGGAGTGGACTCTTGAGG
66 TAGGAGTGGACTCTTGAGG
1682437 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
1 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
1682502 TAGGAGTGGACTCTTGAGG
66 TAGGAGTGGACTCTTGAGG
1682521 GATGACAG
1 GATGACAG
1682529 GCGAGTCGGG
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
84 91 1.00
ACGTcount: A:0.23, C:0.18, G:0.38, T:0.22
Consensus pattern (84 bp):
GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
TAGGAGTGGACTCTTGAGG
Found at i:1682927 original size:91 final size:90
Alignment explanation
Indices: 1682747--1682931 Score: 284
Period size: 91 Copynumber: 2.0 Consensus size: 90
1682737 ATTTCAAACT
*
1682747 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGC
1 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAAT--A-AGATTAGC
1682812 AGAATTGGCAGCAACCGAATAAATTTAC
63 AGAATTGGCAGCAACCGAATAAATTTAC
1682840 TTCAACCAAAAGACAAAACAAAAAGACAAATACTAACTTCACAGTGTTAATA-AAT-AGATTAGC
1 TTCAACCAAAAGACAAAAC--AAAGACAAATACTAACTTCACAGTGTTAA-AGAATAAGATTAGC
*
1682903 AGTATTGGCAGCAACCGAATAAATTTAC
63 AGAATTGGCAGCAACCGAATAAATTTAC
1682931 T
1 T
1682932 AAGCAATCTA
Statistics
Matches: 87, Mismatches: 2, Indels: 8
0.90 0.02 0.08
Matches are distributed among these distances:
91 35 0.40
93 19 0.22
95 32 0.37
96 1 0.01
ACGTcount: A:0.48, C:0.18, G:0.12, T:0.22
Consensus pattern (90 bp):
TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATAAGATTAGCAGA
ATTGGCAGCAACCGAATAAATTTAC
Found at i:1684680 original size:33 final size:33
Alignment explanation
Indices: 1684623--1684721 Score: 162
Period size: 33 Copynumber: 3.0 Consensus size: 33
1684613 ACGAGATAAT
1684623 GAGAATCGCAACGCTGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACGA
1684657 GAGAATCGCAACGCGAAATGACTATCGCAACGA
1 GAGAATCGCAACGCGAAATGACTATCGCAACGA
* **
1684690 GAGAATCGTAACGCGAAATGAAAATCGCAACG
1 GAGAATCGCAACGCGAAATGACTATCGCAACG
1684722 CGAAATAAAA
Statistics
Matches: 62, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
33 48 0.77
34 14 0.23
ACGTcount: A:0.40, C:0.22, G:0.24, T:0.13
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACGA
Found at i:1684725 original size:52 final size:52
Alignment explanation
Indices: 1684660--1684776 Score: 189
Period size: 52 Copynumber: 2.2 Consensus size: 52
1684650 GCAACGAGAG
* ** *
1684660 AATCGCAACGCGAAATGACTATCGCAACGAGAGAATCGTAACGCGAAATGAA
1 AATCGCAACGCGAAATAAAAATCGCAACGAGAGAATCGCAACGCGAAATGAA
1684712 AATCGCAACGCGAAATAAAAATCGCAACGAGAGAATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATAAAAATCGCAACGAGAGAATCGCAACGCGAAATGAA
*
1684764 AATCGCAATGCGA
1 AATCGCAACGCGA
1684777 TTTTGGTTTC
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 60 1.00
ACGTcount: A:0.44, C:0.21, G:0.22, T:0.12
Consensus pattern (52 bp):
AATCGCAACGCGAAATAAAAATCGCAACGAGAGAATCGCAACGCGAAATGAA
Found at i:1684769 original size:19 final size:19
Alignment explanation
Indices: 1684598--1684776 Score: 127
Period size: 19 Copynumber: 10.1 Consensus size: 19
1684588 TCTTTTGGTT
*
1684598 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
1684617 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
1684637 TGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
1684655 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
**
1684671 GAAATGACTATCGCAA--C
1 GAAATGAAAATCGCAACGC
* *
1684688 G--A-GAGAATCGTAACGC
1 GAAATGAAAATCGCAACGC
1684704 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
1684723 GAAATAAAAATCGCAA--C
1 GAAATGAAAATCGCAACGC
*
1684740 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
1684756 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
1684775 GA
1 GA
1684777 TTTTGGTTTC
Statistics
Matches: 125, Mismatches: 18, Indels: 34
0.71 0.10 0.19
Matches are distributed among these distances:
14 26 0.21
15 3 0.02
16 6 0.05
17 5 0.04
18 4 0.03
19 52 0.42
20 27 0.22
21 2 0.02
ACGTcount: A:0.44, C:0.20, G:0.23, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:1684805 original size:19 final size:19
Alignment explanation
Indices: 1684772--1684816 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
1684762 AAAATCGCAA
*
1684772 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGATTTCGCGT
*
1684791 TGCGATTTTTATTTCGCGT
1 TGCGATTTTGATTTCGCGT
1684810 TGCGATT
1 TGCGATT
1684817 CTCTCGTTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.09, C:0.16, G:0.27, T:0.49
Consensus pattern (19 bp):
TGCGATTTTGATTTCGCGT
Found at i:1685394 original size:20 final size:20
Alignment explanation
Indices: 1685369--1685421 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
1685359 GCACTATGTA
1685369 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
1685389 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
* *
1685409 TATCTCGTTGCGA
1 AATCGCGTTGCGA
1685422 TTTTGTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (20 bp):
AATCGCGTTGCGAAAGTCAG
Found at i:1687316 original size:25 final size:26
Alignment explanation
Indices: 1687278--1687326 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
1687268 TTTTATAATA
*
1687278 ATAAATTTTTTATAATTTT-AAAAATT
1 ATAAATTTTATAT-ATTTTGAAAAATT
1687304 ATAAA-TTTATATATTTTGAAAAA
1 ATAAATTTTATATATTTTGAAAAA
1687327 ATATTTTCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 5 0.24
25 11 0.52
26 5 0.24
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (26 bp):
ATAAATTTTATATATTTTGAAAAATT
Found at i:1689589 original size:75 final size:75
Alignment explanation
Indices: 1689466--1689648 Score: 251
Period size: 75 Copynumber: 2.4 Consensus size: 75
1689456 CTTAATCGGT
** * * * *
1689466 TAAAATAAAATATACGCTATCTATTATGTTAAACTATCTACCGGTTTGTTGGAA-GGATACTAAT
1 TAAAATAAAATAGGCGCTACCTATTATGTTAAAATACCTACCGATTTGTT-GAATGGATACTAAT
1689530 AATGCAAACGA
65 AATGCAAACGA
* *
1689541 TAAAATAAAATAGGCGCTACCTATTATGTTAAAATACCTACCGATTTGTTTAATGGTTACTAATA
1 TAAAATAAAATAGGCGCTACCTATTATGTTAAAATACCTACCGATTTGTTGAATGGATACTAATA
* *
1689606 ATGTAAACGG
66 ATGCAAACGA
*
1689616 TAAAATAAAATAGGCGCTACCTATTACGTTAAA
1 TAAAATAAAATAGGCGCTACCTATTATGTTAAA
1689649 TATGTGCTAC
Statistics
Matches: 96, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
74 2 0.02
75 94 0.98
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.32
Consensus pattern (75 bp):
TAAAATAAAATAGGCGCTACCTATTATGTTAAAATACCTACCGATTTGTTGAATGGATACTAATA
ATGCAAACGA
Found at i:1689657 original size:23 final size:23
Alignment explanation
Indices: 1689631--1689694 Score: 119
Period size: 23 Copynumber: 2.8 Consensus size: 23
1689621 TAAAATAGGC
*
1689631 GCTACCTATTACGTTAAATATGT
1 GCTACCTATTACGTTAAATAAGT
1689654 GCTACCTATTACGTTAAATAAGT
1 GCTACCTATTACGTTAAATAAGT
1689677 GCTACCTATTACGTTAAA
1 GCTACCTATTACGTTAAA
1689695 CTAGCTATCA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (23 bp):
GCTACCTATTACGTTAAATAAGT
Found at i:1689785 original size:75 final size:75
Alignment explanation
Indices: 1689678--1689844 Score: 196
Period size: 75 Copynumber: 2.2 Consensus size: 75
1689668 TAAATAAGTG
* ** *
1689678 CTACCTATTACGTTAAACTAGCTATC-AGTTTGTTTAAAGGTTAATAATAATGTAAAC-AGTAA-
1 CTACCTATTACGTTAAAATATTTACCGA-TTTGTTTAAAGGTTAATAATAATGTAAACGA-TAAT
1689740 AAAAATATAGGCA
64 AAAAA-ATAGGCA
* ** *
1689753 CTACTTATTACGTTAAAATATTTACCGATTTGTTTAAAGGTTTCTAATAATGTAAACGATAATAT
1 CTACCTATTACGTTAAAATATTTACCGATTTGTTTAAAGGTTAATAATAATGTAAACGATAATAA
*
1689818 AAAATAGGCG
66 AAAATAGGCA
*
1689828 CTACCTATTATGTTAAA
1 CTACCTATTACGTTAAA
1689845 TAGGCGATAC
Statistics
Matches: 78, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
75 72 0.92
76 6 0.08
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (75 bp):
CTACCTATTACGTTAAAATATTTACCGATTTGTTTAAAGGTTAATAATAATGTAAACGATAATAA
AAAATAGGCA
Found at i:1689827 original size:196 final size:195
Alignment explanation
Indices: 1689480--1689921 Score: 618
Period size: 196 Copynumber: 2.3 Consensus size: 195
1689470 ATAAAATATA
* * * * ** * *
1689480 CGCTATCTATTATGTTAAACTATCTACCGGTTTGTTGGAAGGATACTAATAATGCAAACGATAAA
1 CGCTACCTATTACGTTAAACTAGCTACCAGTTTGTTTAAAGGTTAATAATAATGCAAACGATAAA
* * *
1689545 ATAAAATAGGCGCTACCTATTATGTTAAAATACCTACCGATTTGTTTAATGGTTACTAATAATGT
66 ATAAAATAGGCACTACCTATTACGTTAAAATACCTACCGATTTGTTTAAAGGTTACTAATAATGT
* * * * *
1689610 AAACGGTAAAATAAAATAGGCGCTACCTATTACGTTAAATATGTGCTACCTATTACGTTAAATAA
131 AAACGATAAAATAAAATAGGCGCTACCTATTACGTTAAATAGGCGATACCTA-TACATTAAATAA
1689675 G
195 G
* * *
1689676 TGCTACCTATTACGTTAAACTAGCTATCAGTTTGTTTAAAGGTTAATAATAATGTAAAC-AGTAA
1 CGCTACCTATTACGTTAAACTAGCTACCAGTTTGTTTAAAGGTTAATAATAATGCAAACGA-TAA
* ** *
1689740 AA-AAATATAGGCACTACTTATTACGTTAAAATATTTACCGATTTGTTTAAAGGTTTCTAATAAT
65 AATAAA-ATAGGCACTACCTATTACGTTAAAATACCTACCGATTTGTTTAAAGGTTACTAATAAT
* *
1689804 GTAAACGATAATATAAAATAGGCGCTACCTATTATGTTAAATAGGCGATACCTATACATTAAATA
129 GTAAACGATAAAATAAAATAGGCGCTACCTATTACGTTAAATAGGCGATACCTATACATTAAATA
1689869 AG
194 AG
1689871 CGCTACCTATTACGTTAAACTAGCTACCAGTTTGTTTAAAGGTTAATAATA
1 CGCTACCTATTACGTTAAACTAGCTACCAGTTTGTTTAAAGGTTAATAATA
1689922 TAAATGATAA
Statistics
Matches: 217, Mismatches: 27, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
195 65 0.30
196 152 0.70
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (195 bp):
CGCTACCTATTACGTTAAACTAGCTACCAGTTTGTTTAAAGGTTAATAATAATGCAAACGATAAA
ATAAAATAGGCACTACCTATTACGTTAAAATACCTACCGATTTGTTTAAAGGTTACTAATAATGT
AAACGATAAAATAAAATAGGCGCTACCTATTACGTTAAATAGGCGATACCTATACATTAAATAAG
Found at i:1689868 original size:22 final size:23
Alignment explanation
Indices: 1689819--1689889 Score: 99
Period size: 23 Copynumber: 3.1 Consensus size: 23
1689809 CGATAATATA
*
1689819 AAATAGGCGCTACCTATTATGTT
1 AAATAGGCGCTACCTATTACGTT
* *
1689842 AAATAGGCGATACCTA-TACATT
1 AAATAGGCGCTACCTATTACGTT
*
1689864 AAATAAGCGCTACCTATTACGTT
1 AAATAGGCGCTACCTATTACGTT
1689887 AAA
1 AAA
1689890 CTAGCTACCA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
22 18 0.44
23 23 0.56
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.30
Consensus pattern (23 bp):
AAATAGGCGCTACCTATTACGTT
Found at i:1690586 original size:107 final size:108
Alignment explanation
Indices: 1690417--1690630 Score: 265
Period size: 107 Copynumber: 2.0 Consensus size: 108
1690407 ATATTTAGTT
* * *
1690417 ATAACAAAATAAGAAATTAACTTATTTTGTTATTGTGAGATTTCGAAAGTCCCATCAGCTTAAAT
1 ATAACAAAATAAGAAATTAACTTATTTTGTTATCGTGAGATTTCGAAAGTCCCATCAACTTAAAC
* *
1690482 TTTGGTAACATTTTAGGCGCTACTTAAAATGTTGATAATATTA
66 TTTGATAACATTTTAGGCGCTACATAAAATGTTGATAATATTA
* * *
1690525 ATAACAAAATAA-ATAATTAAC-TATTTTGTTATCGTCGA-ATTTCTAAGGAT-CTATCAACTTA
1 ATAACAAAATAAGA-AATTAACTTATTTTGTTATCGT-GAGATTTCGAAAG-TCCCATCAACTTA
* * * *
1690586 AACTTTGATAATATTTTAGGTGCTACATAATATTTTGATAATATT
63 AACTTTGATAACATTTTAGGCGCTACATAAAATGTTGATAATATT
1690631 TTAGACGCTA
Statistics
Matches: 91, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
107 69 0.76
108 22 0.24
ACGTcount: A:0.38, C:0.11, G:0.12, T:0.40
Consensus pattern (108 bp):
ATAACAAAATAAGAAATTAACTTATTTTGTTATCGTGAGATTTCGAAAGTCCCATCAACTTAAAC
TTTGATAACATTTTAGGCGCTACATAAAATGTTGATAATATTA
Found at i:1690625 original size:30 final size:30
Alignment explanation
Indices: 1690589--1690660 Score: 99
Period size: 30 Copynumber: 2.4 Consensus size: 30
1690579 CAACTTAAAC
**
1690589 TTTGATAATATTTTAGGTGCTACATAATAT
1 TTTGATAATATTTTAGACGCTACATAATAT
*
1690619 TTTGATAATATTTTAGACGCTACCTAATAT
1 TTTGATAATATTTTAGACGCTACATAATAT
* *
1690649 GTTAATAATATT
1 TTTGATAATATT
1690661 GATAACAAAG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.35, C:0.08, G:0.11, T:0.46
Consensus pattern (30 bp):
TTTGATAATATTTTAGACGCTACATAATAT
Found at i:1696379 original size:183 final size:183
Alignment explanation
Indices: 1695727--1696381 Score: 992
Period size: 183 Copynumber: 3.6 Consensus size: 183
1695717 GTCGATACAA
* * **
1695727 ATAAAAATGTATCTATTCATAACAATATAACAGATAAAAATATGACAAAACCGGTTTCATTATGA
1 ATAAAAATGTATCGATCCATAACAATATAACAGATAAAAATATGACAAAACATGTTTCATTATGA
* * * ** *
1695792 CTAAACCGATAAAGCGCTGCCGGATATGTTGAAAGTATCGATTAGATTGTAATTAA-TATCGACA
66 CAAAACCGATAAAGCGCTACCGGATATGTTGAAAGTGTCGATTCCATTG-AAATAAGTATCGACA
* **
1695856 CTTTTGGAATTTAAAAGAGAAGCAGTAATAGCGCCAATAAAGTGTCGATAC-AA
130 CTTTTGGAATTTAAAAGAGAAGCAGTAATAGCGCCTATAAAGTGTCGATACTTT
* * * *
1695909 ATAAAAATGTATCGATCCATAACAGTATCACAGGTAAAAATATGATAAAACATGTTTCATTATGA
1 ATAAAAATGTATCGATCCATAACAATATAACAGATAAAAATATGACAAAACATGTTTCATTATGA
* * * * *
1695974 CAAAACCGGTAAATCGCTACCGGATATGTTGAATGTGTCAATACCATTGAAATAAGTATCGACAC
66 CAAAACCGATAAAGCGCTACCGGATATGTTGAAAGTGTCGATTCCATTGAAATAAGTATCGACAC
1696039 TTTTGGAATTTAAAAGAGAAGCAGTAATAGCGCCTATAAAGTGTCGATACTTT
131 TTTTGGAATTTAAAAGAGAAGCAGTAATAGCGCCTATAAAGTGTCGATACTTT
* *
1696092 ATAAAAATGTATCGATTCATAACAATATAACAGATAAAAATATGACAAAACATGTATCATTATGA
1 ATAAAAATGTATCGATCCATAACAATATAACAGATAAAAATATGACAAAACATGTTTCATTATGA
* * * *
1696157 CAAAACTGGTAAAGCGCTATCGGATATGTTGAAAGTGTCGATTCCATTGAAATAAGTATCAACAC
66 CAAAACCGATAAAGCGCTACCGGATATGTTGAAAGTGTCGATTCCATTGAAATAAGTATCGACAC
*
1696222 TTTTGGAATTTAAAAGAGAAGCAGTAATAACGCCTATAAAGTGTCGATACTTT
131 TTTTGGAATTTAAAAGAGAAGCAGTAATAGCGCCTATAAAGTGTCGATACTTT
*
1696275 ATAAAAATGTATCGATCCATAACATTATAACATG-TAAAAATATGACAAAACATGTTTCATTATG
1 ATAAAAATGTATCGATCCATAACAATATAACA-GATAAAAATATGACAAAACATGTTTCATTATG
*
1696339 ACAAAACCGATAAAGCACTACCGGATATGTTGAAAGTGTCGAT
65 ACAAAACCGATAAAGCGCTACCGGATATGTTGAAAGTGTCGAT
1696382 ATTTTAATAA
Statistics
Matches: 427, Mismatches: 43, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
181 5 0.01
182 154 0.36
183 267 0.63
184 1 0.00
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (183 bp):
ATAAAAATGTATCGATCCATAACAATATAACAGATAAAAATATGACAAAACATGTTTCATTATGA
CAAAACCGATAAAGCGCTACCGGATATGTTGAAAGTGTCGATTCCATTGAAATAAGTATCGACAC
TTTTGGAATTTAAAAGAGAAGCAGTAATAGCGCCTATAAAGTGTCGATACTTT
Found at i:1698708 original size:15 final size:15
Alignment explanation
Indices: 1698688--1698721 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
1698678 AGATGGTTGT
1698688 AGGGGGATGACGGTG
1 AGGGGGATGACGGTG
1698703 AGGGGGATGACGGTG
1 AGGGGGATGACGGTG
1698718 AGGG
1 AGGG
1698722 AAAACAGAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.21, C:0.06, G:0.62, T:0.12
Consensus pattern (15 bp):
AGGGGGATGACGGTG
Found at i:1698972 original size:66 final size:66
Alignment explanation
Indices: 1698842--1698972 Score: 176
Period size: 66 Copynumber: 2.0 Consensus size: 66
1698832 AGGGGGAAAT
* * * *
1698842 GGGTGGAAAAATAGATGGAGTGGTGAAAGAAGTTGAGGTATTGAGGGGTGAACTTAAGATGGTGA
1 GGGTGGAAAAATAGATGGAGTGGTGAAAGAAGTTGAGGAAATGAGGAGTGAACTTAAGAGGGTGA
1698907 C
66 C
* *
1698908 GGGTGGAAAAATTGATGGAGTGGTGAAGGAAGTT-ATGGAAATGAGGAGTGAACTTACAG-GGGT
1 GGGTGGAAAAATAGATGGAGTGGTGAAAGAAGTTGA-GGAAATGAGGAGTGAACTTA-AGAGGGT
1698971 GA
64 GA
1698973 AGGGGGTGGT
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
65 1 0.02
66 54 0.95
67 2 0.04
ACGTcount: A:0.34, C:0.03, G:0.41, T:0.22
Consensus pattern (66 bp):
GGGTGGAAAAATAGATGGAGTGGTGAAAGAAGTTGAGGAAATGAGGAGTGAACTTAAGAGGGTGA
C
Found at i:1702909 original size:22 final size:23
Alignment explanation
Indices: 1702867--1702926 Score: 77
Period size: 22 Copynumber: 2.7 Consensus size: 23
1702857 CTCATATAAA
*
1702867 TGCACCGAAGTGCCACATAGAAT
1 TGCACCGCAGTGCCACATAGAAT
* * *
1702890 TGCA-CGTAGTGCCGCGTAGAAT
1 TGCACCGCAGTGCCACATAGAAT
1702912 TGCACCGCAGTGCCA
1 TGCACCGCAGTGCCA
1702927 TATAATAATG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
22 19 0.61
23 12 0.39
ACGTcount: A:0.27, C:0.28, G:0.27, T:0.18
Consensus pattern (23 bp):
TGCACCGCAGTGCCACATAGAAT
Found at i:1703113 original size:103 final size:103
Alignment explanation
Indices: 1702945--1703159 Score: 385
Period size: 103 Copynumber: 2.1 Consensus size: 103
1702935 TGTCCATAAG
* * *
1702945 GACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCAGAC
1 GACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGAATGTGTCTCACCAGAC
1703010 TTCACACATGTTCCAAAGAATACATATATGTCCCGAAA
66 TTCACACATGTTCCAAAGAATACATATATGTCCCGAAA
*
1703048 GACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGAATGTGTCTCACCAGAC
1 GACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGAATGTGTCTCACCAGAC
*
1703113 TTCACACATGTTCCAAAGAATACATATATGTCCCGAAG
66 TTCACACATGTTCCAAAGAATACATATATGTCCCGAAA
1703151 GACCACATA
1 GACCACATA
1703160 GACCCTCGAC
Statistics
Matches: 107, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 107 1.00
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.26
Consensus pattern (103 bp):
GACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGAATGTGTCTCACCAGAC
TTCACACATGTTCCAAAGAATACATATATGTCCCGAAA
Found at i:1706023 original size:12 final size:12
Alignment explanation
Indices: 1706006--1706066 Score: 58
Period size: 12 Copynumber: 5.4 Consensus size: 12
1705996 GGGTTGTGCA
1706006 TATCTATCTGTC
1 TATCTATCTGTC
* *
1706018 TATCTATCTATA
1 TATCTATCTGTC
*
1706030 TGTCTATCTG--
1 TATCTATCTGTC
*
1706040 --TCTATCTGTT
1 TATCTATCTGTC
1706050 TATCTATCTGTC
1 TATCTATCTGTC
1706062 TATCT
1 TATCT
1706067 CCTCTCATAG
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
8 8 0.20
12 32 0.80
ACGTcount: A:0.18, C:0.21, G:0.08, T:0.52
Consensus pattern (12 bp):
TATCTATCTGTC
Found at i:1706027 original size:16 final size:16
Alignment explanation
Indices: 1706006--1706058 Score: 79
Period size: 16 Copynumber: 3.3 Consensus size: 16
1705996 GGGTTGTGCA
1706006 TATCTATCTGTCTATC
1 TATCTATCTGTCTATC
*
1706022 TATCTATATGTCTATC
1 TATCTATCTGTCTATC
* *
1706038 TGTCTATCTGTTTATC
1 TATCTATCTGTCTATC
1706054 TATCT
1 TATCT
1706059 GTCTATCTCC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.19, C:0.21, G:0.08, T:0.53
Consensus pattern (16 bp):
TATCTATCTGTCTATC
Found at i:1706045 original size:20 final size:20
Alignment explanation
Indices: 1706005--1706066 Score: 70
Period size: 20 Copynumber: 2.9 Consensus size: 20
1705995 TGGGTTGTGC
1706005 ATATCTATCTGTCTATCTATCT
1 ATATCTATCTGTCTATCTA--T
*
1706027 ATATGTCTATCTGTCTATCTGT
1 ATA--TCTATCTGTCTATCTAT
*
1706049 TTATCTATCTGTCTATCT
1 ATATCTATCTGTCTATCT
1706067 CCTCTCATAG
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
20 15 0.42
22 6 0.17
24 15 0.42
ACGTcount: A:0.19, C:0.21, G:0.08, T:0.52
Consensus pattern (20 bp):
ATATCTATCTGTCTATCTAT
Found at i:1706066 original size:8 final size:8
Alignment explanation
Indices: 1706008--1706054 Score: 67
Period size: 8 Copynumber: 5.9 Consensus size: 8
1705998 GTTGTGCATA
1706008 TCTATCTG
1 TCTATCTG
*
1706016 TCTATCTA
1 TCTATCTG
*
1706024 TCTATATG
1 TCTATCTG
1706032 TCTATCTG
1 TCTATCTG
1706040 TCTATCTG
1 TCTATCTG
*
1706048 TTTATCT
1 TCTATCT
1706055 ATCTGTCTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
8 34 1.00
ACGTcount: A:0.17, C:0.21, G:0.09, T:0.53
Consensus pattern (8 bp):
TCTATCTG
Found at i:1708533 original size:199 final size:199
Alignment explanation
Indices: 1707705--1709422 Score: 2629
Period size: 199 Copynumber: 8.7 Consensus size: 199
1707695 GATAATTTTT
* * * * **
1707705 AAATTGTGTC-ATTCCAAACACATCAAAACCGATAATTATAATAAAATAGGTAAATTTACAATGT
1 AAATTGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGT
* * * * * * * * *
1707769 TACCGGT-ATAATAAACCGGTTTAATTAGAAAATAGGTCAACATGATGTATCAACACTTTTTAAA
66 AACCGGTAAAAATATACCGGTTTTATGATAGAATAGGTCAACATAATGTATCGACACTTTTTAAA
* * *
1707833 TTTGTGTCGATACTTTTAGTCCAGAATGAATGCCCAACGAGTTGCACGCATAAAGTGTCGATACA
131 TTTGTGTCGATACTTTTGGTCCAGAATCAATGCCCAACGAGGTGCACGCATAAAGTGTCGATACA
1707898 TTTA
196 TTTA
* *
1707902 AATTTGTATCGATCCCAAAAGCATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGT
1 AAATTGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGT
* * * *
1707967 AACCAGTAAAAATATACCGGTTTTATGACAGAATAAGTC-ACA-AATGTATCGACACATTTTAAA
66 AACCGGTAAAAATATACCGGTTTTATGATAGAATAGGTCAACATAATGTATCGACACTTTTTAAA
* *
1708030 TTTGAGTCGATACTTTTGGTCCAGAATCAATGCCCAACGAGGTGCATGCATAAAGTGTCGATACA
131 TTTGTGTCGATACTTTTGGTCCAGAATCAATGCCCAACGAGGTGCACGCATAAAGTGTCGATACA
1708095 TTTA
196 TTTA
* * * *
1708099 AATTTGTATTGATCCCAAAAACATTGAAACCGATAATTATAATGTAATAGGTAAATTTACAATTT
1 AAATTGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGT
* *
1708164 AACCGGTAAAAATATACCGGTTTTATGACAAAATAGGTCAACATAATGTATCGACAC-TTTTAAA
66 AACCGGTAAAAATATACCGGTTTTATGATAGAATAGGTCAACATAATGTATCGACACTTTTTAAA
1708228 TTTGTGTCGATACTTTTGGTCCAGAATCAATGCCCAACGAGGTGCACGCATAAAGTGTCGATACA
131 TTTGTGTCGATACTTTTGGTCCAGAATCAATGCCCAACGAGGTGCACGCATAAAGTGTCGATACA
1708293 TTTA
196 TTTA
* *
1708297 AAATTATATCGATTCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGT
1 AAATTGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGT
* * * *
1708362 AACCGGTAAAAATATATCAGTTTTATGACATAATAGGTCAACATAATGTATCGACACTTTTTAAA
66 AACCGGTAAAAATATACCGGTTTTATGATAGAATAGGTCAACATAATGTATCGACACTTTTTAAA
* * * * *
1708427 TTTGTGTTGATACTTTTGGTCCAGAATCATTACCCAACGAGGTACAAGCATAAAGTGTCGATACA
131 TTTGTGTCGATACTTTTGGTCCAGAATCAATGCCCAACGAGGTGCACGCATAAAGTGTCGATACA
1708492 TTTA
196 TTTA
* * *
1708496 AAATTGTATTGATCCCAAAAACATCAAAACCGATAATTATAATGTAATATGTAAATTTACAATGT
1 AAATTGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGT
* * * *
1708561 ATCCGGTAAAAATATATCGATTTTATGATATAATAGGTCAACATAATGTATCGACACTTTTTAAA
66 AACCGGTAAAAATATACCGGTTTTATGATAGAATAGGTCAACATAATGTATCGACACTTTTTAAA
* * *
1708626 TTTGTGTCGATACTTTTGGTCCAGAATCAATACCCAACGAGGTGCACGTATAAAGTGTTGATACA
131 TTTGTGTCGATACTTTTGGTCCAGAATCAATGCCCAACGAGGTGCACGCATAAAGTGTCGATACA
1708691 TTTA
196 TTTA
1708695 AAATTGTATCGATCCC-AAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGT
1 AAATTGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGT
* * * * * *
1708759 AACCGATAAAAAAATATCGGTTTTATGATAGAATAGGTTAACATACTGTTTCGACACTTTTTAAA
66 AACCGGTAAAAATATACCGGTTTTATGATAGAATAGGTCAACATAATGTATCGACACTTTTTAAA
*
1708824 TTTGTGTCGATACTTTTGGTCCAGAATCAATGCCCAACGAGGTGCACACATAAAGTGTCGATACA
131 TTTGTGTCGATACTTTTGGTCCAGAATCAATGCCCAACGAGGTGCACGCATAAAGTGTCGATACA
1708889 TTTA
196 TTTA
* *
1708893 AAATTGTATCGATCCCATAAACATCGAAACCGATAATTATAATGTAATATGTAAATTTACAATGT
1 AAATTGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGT
* * *
1708958 AACCGGTAAAAATATACTGTTTTTATGATAGAATAGGTTAACATAATGTATCGACACTTTTTAAA
66 AACCGGTAAAAATATACCGGTTTTATGATAGAATAGGTCAACATAATGTATCGACACTTTTTAAA
*
1709023 TTTGTGTCGATACTTTTGGTCAAGAATCAATGCCCAACGAGGTGCACGCATAAAGTGTCGATACA
131 TTTGTGTCGATACTTTTGGTCCAGAATCAATGCCCAACGAGGTGCACGCATAAAGTGTCGATACA
1709088 TTTA
196 TTTA
* * * *
1709092 AAATTGTATCGATTCCAAAAACATTGAAACCGATAATTATAATGTAACAGGTAAATTTATAATGT
1 AAATTGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGT
* * * *
1709157 AACTGGTAAAAGTATACCAGTTTTATGATAGAATAGGTCAACATAATTTATCGACACTTTTTAAA
66 AACCGGTAAAAATATACCGGTTTTATGATAGAATAGGTCAACATAATGTATCGACACTTTTTAAA
*
1709222 TTTGTGTCGATACTTTTGGTCCAGAATCAATGCCCAACGAGGTGCACGCATAAAGTGTTGATACA
131 TTTGTGTCGATACTTTTGGTCCAGAATCAATGCCCAACGAGGTGCACGCATAAAGTGTCGATACA
1709287 TTTA
196 TTTA
* *
1709291 AAATTGTATCGCTCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATAT
1 AAATTGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGT
* * * * * * * *
1709356 AACCGGTAGAAATATACCAGTTTAATTAGAAAATAGGTTAACATAATGTATCGATACTTTTTAAA
66 AACCGGTAAAAATATACCGGTTTTATGATAGAATAGGTCAACATAATGTATCGACACTTTTTAAA
1709421 TT
131 TT
1709423 CTATCAATAT
Statistics
Matches: 1395, Mismatches: 120, Indels: 10
0.91 0.08 0.01
Matches are distributed among these distances:
197 187 0.13
198 430 0.31
199 778 0.56
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (199 bp):
AAATTGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGT
AACCGGTAAAAATATACCGGTTTTATGATAGAATAGGTCAACATAATGTATCGACACTTTTTAAA
TTTGTGTCGATACTTTTGGTCCAGAATCAATGCCCAACGAGGTGCACGCATAAAGTGTCGATACA
TTTA
Found at i:1708587 original size:397 final size:397
Alignment explanation
Indices: 1707705--1709422 Score: 2604
Period size: 397 Copynumber: 4.3 Consensus size: 397
1707695 GATAATTTTT
* * * * **
1707705 AAATTGTGTC-ATTCCAAACACATCAAAACCGATAATTATAATAAAATAGGTAAATTTACAATGT
1 AAATTGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGT
* * * * * * * *
1707769 TACCGGT-ATAATAAACCGGTTTAATTAGAAAATAGGTCAACATGATGTATCAACACTTTTTAAA
66 AACCGGTAAAAATATA-CGATTTTATGAGAAAATAGGTCAACATAATGTATCGACACTTTTTAAA
* * *
1707833 TTTGTGTCGATACTTTTAGTCCAGAATGAATGCCCAACGAGTTGCACGCATAAAGTGTCGATACA
130 TTTGTGTCGATACTTTTGGTCCAGAATCAATGCCCAACGAGGTGCACGCATAAAGTGTCGATACA
* * *
1707898 TTTAAATTTGTATCGATCCCAAAAGCATCGAAACCGATAATTATAATGTAATAGGTAAATTTACA
195 TTTAAAATTGTATCGATTCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACA
* * * *
1707963 ATGTAACCAGTAAAAATATACCGGTTTTATGACAGAATAAGTC-ACA-AATGTATCGACACATTT
260 ATGTAACCGGTAAAAATATACCAGTTTTATGACAGAATAGGTCAACATAATGTATCGACACTTTT
* *
1708026 TAAATTTGAGTCGATACTTTTGGTCCAGAATCAATGCCCAACGAGGTGCATGCATAAAGTGTCGA
325 TAAATTTGTGTCGATACTTTTGGTCCAGAATCAATGCCCAACGAGGTGCAAGCATAAAGTGTCGA
1708091 TACATTTA
390 TACATTTA
* * * *
1708099 AATTTGTATTGATCCCAAAAACATTGAAACCGATAATTATAATGTAATAGGTAAATTTACAATTT
1 AAATTGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGT
* *
1708164 AACCGGTAAAAATATACCGGTTTTATGACAAAATAGGTCAACATAATGTATCGACAC-TTTTAAA
66 AACCGGTAAAAATATA-CGATTTTATGAGAAAATAGGTCAACATAATGTATCGACACTTTTTAAA
1708228 TTTGTGTCGATACTTTTGGTCCAGAATCAATGCCCAACGAGGTGCACGCATAAAGTGTCGATACA
130 TTTGTGTCGATACTTTTGGTCCAGAATCAATGCCCAACGAGGTGCACGCATAAAGTGTCGATACA
*
1708293 TTTAAAATTATATCGATTCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACA
195 TTTAAAATTGTATCGATTCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACA
* *
1708358 ATGTAACCGGTAAAAATATATCAGTTTTATGACATAATAGGTCAACATAATGTATCGACACTTTT
260 ATGTAACCGGTAAAAATATACCAGTTTTATGACAGAATAGGTCAACATAATGTATCGACACTTTT
* * * *
1708423 TAAATTTGTGTTGATACTTTTGGTCCAGAATCATTACCCAACGAGGTACAAGCATAAAGTGTCGA
325 TAAATTTGTGTCGATACTTTTGGTCCAGAATCAATGCCCAACGAGGTGCAAGCATAAAGTGTCGA
1708488 TACATTTA
390 TACATTTA
* * *
1708496 AAATTGTATTGATCCCAAAAACATCAAAACCGATAATTATAATGTAATATGTAAATTTACAATGT
1 AAATTGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGT
* * *
1708561 ATCCGGTAAAAATATATCGATTTTATGATATAATAGGTCAACATAATGTATCGACACTTTTTAAA
66 AACCGGTAAAAATATA-CGATTTTATGAGAAAATAGGTCAACATAATGTATCGACACTTTTTAAA
* * *
1708626 TTTGTGTCGATACTTTTGGTCCAGAATCAATACCCAACGAGGTGCACGTATAAAGTGTTGATACA
130 TTTGTGTCGATACTTTTGGTCCAGAATCAATGCCCAACGAGGTGCACGCATAAAGTGTCGATACA
*
1708691 TTTAAAATTGTATCGA-TCCCAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACA
195 TTTAAAATTGTATCGATTCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACA
* * * * * * * *
1708755 ATGTAACCGATAAAAAAATATCGGTTTTATGATAGAATAGGTTAACATACTGTTTCGACACTTTT
260 ATGTAACCGGTAAAAATATACCAGTTTTATGACAGAATAGGTCAACATAATGTATCGACACTTTT
1708820 TAAATTTGTGTCGATACTTTTGGTCCAGAATCAATGCCCAACGAGGTGCACA-CATAAAGTGTCG
325 TAAATTTGTGTCGATACTTTTGGTCCAGAATCAATGCCCAACGAGGTGCA-AGCATAAAGTGTCG
1708884 ATACATTTA
389 ATACATTTA
* *
1708893 AAATTGTATCGATCCCATAAACATCGAAACCGATAATTATAATGTAATATGTAAATTTACAATGT
1 AAATTGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGT
* * * *
1708958 AACCGGTAAAAATATACTGTTTTTATGATAGAATAGGTTAACATAATGTATCGACACTTTTTAAA
66 AACCGGTAAAAATATAC-GATTTTATGAGAAAATAGGTCAACATAATGTATCGACACTTTTTAAA
*
1709023 TTTGTGTCGATACTTTTGGTCAAGAATCAATGCCCAACGAGGTGCACGCATAAAGTGTCGATACA
130 TTTGTGTCGATACTTTTGGTCCAGAATCAATGCCCAACGAGGTGCACGCATAAAGTGTCGATACA
* * *
1709088 TTTAAAATTGTATCGATTCCAAAAACATTGAAACCGATAATTATAATGTAACAGGTAAATTTATA
195 TTTAAAATTGTATCGATTCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACA
* * * *
1709153 ATGTAACTGGTAAAAGTATACCAGTTTTATGATAGAATAGGTCAACATAATTTATCGACACTTTT
260 ATGTAACCGGTAAAAATATACCAGTTTTATGACAGAATAGGTCAACATAATGTATCGACACTTTT
* *
1709218 TAAATTTGTGTCGATACTTTTGGTCCAGAATCAATGCCCAACGAGGTGCACGCATAAAGTGTTGA
325 TAAATTTGTGTCGATACTTTTGGTCCAGAATCAATGCCCAACGAGGTGCAAGCATAAAGTGTCGA
1709283 TACATTTA
390 TACATTTA
* *
1709291 AAATTGTATCGCTCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATAT
1 AAATTGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGT
* * * * * *
1709356 AACCGGTAGAAATATACCAGTTTAATTAGAAAATAGGTTAACATAATGTATCGATACTTTTTAAA
66 AACCGGTAAAAATATACGA-TTTTATGAGAAAATAGGTCAACATAATGTATCGACACTTTTTAAA
1709421 TT
130 TT
1709423 CTATCAATAT
Statistics
Matches: 1211, Mismatches: 103, Indels: 16
0.91 0.08 0.01
Matches are distributed among these distances:
394 7 0.01
395 221 0.18
396 46 0.04
397 564 0.47
398 373 0.31
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (397 bp):
AAATTGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGT
AACCGGTAAAAATATACGATTTTATGAGAAAATAGGTCAACATAATGTATCGACACTTTTTAAAT
TTGTGTCGATACTTTTGGTCCAGAATCAATGCCCAACGAGGTGCACGCATAAAGTGTCGATACAT
TTAAAATTGTATCGATTCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAA
TGTAACCGGTAAAAATATACCAGTTTTATGACAGAATAGGTCAACATAATGTATCGACACTTTTT
AAATTTGTGTCGATACTTTTGGTCCAGAATCAATGCCCAACGAGGTGCAAGCATAAAGTGTCGAT
ACATTTA
Found at i:1708929 original size:596 final size:595
Alignment explanation
Indices: 1707718--1709422 Score: 2628
Period size: 596 Copynumber: 2.9 Consensus size: 595
1707708 TTGTGTCATT
* * ** * *
1707718 CCAAACACATCAAAACCGATAATTATAATAAAATAGGTAAATTTACAATGTTACCGGT-ATAATA
1 CCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTAAAAATA
* * * * * * *
1707782 AACCGGTTTAATTAGAAAATAGGTCAACATGATGTATCAACACTTTTTAAATTTGTGTCGATACT
66 TA-CAGTTTTATGACAAAATAGGTCAACATAATGTATCGACACTTTTTAAATTTGTGTCGATACT
* * * *
1707847 TTTAGTCCAGAATGAATGCCCAACGAGTTGCACGCATAAAGTGTCGATACATTTAAATTTGTATC
130 TTTGGTCCAGAATCAATGCCCAACGAGGTGCACGCATAAAGTGTCGATACATTTAAAATTGTATC
* *
1707912 GATCCCAAAAGCATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACCAGTAAA
195 GATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTAAA
* * * * *
1707977 AATATACCGGTTTTATGACAGAATAAGTC-ACA-AATGTATCGACACATTTTAAATTTGAGTCGA
260 AATATA-CGATTTTATGATAGAATAGGTCAACATAATGTATCGACACTTTTTAAATTTGTGTCGA
* * *
1708040 TACTTTTGGTCCAGAATCAATGCCCAACGAGGTGCATGCATAAAGTGTCGATACATTTAAATTTG
324 TACTTTTGGTCCAGAATCAATGCCCAACGAGGTGCACGCATAAAGTGTTGATACATTTAAAATTG
* * *
1708105 TATTGATCCCAAAAACATTGAAACCGATAATTATAATGTAATAGGTAAATTTACAATTTAACCGG
389 TATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATATAACCGG
*
1708170 TAAAAATATACCGGTTTTATGACAAAATAGGTCAACATAATGTATCGACAC-TTTTAAATTTGTG
454 TAAAAATATACCGGTTTTATGACAAAATAGGTTAACATAATGTATCGACACTTTTTAAATTTGTG
*
1708234 TCGATACTTTTGGTCCAGAATCAATGCCCAACGAGGTGCACGCATAAAGTGTCGATACATTTAAA
519 TCGATACTTTTGGTCCAGAATCAATGCCCAACGAGGTGCACACATAAAGTGTCGATACATTTAAA
*
1708299 ATTATATCGATT
584 ATTATATCGATC
1708311 CCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTAAAAATA
1 CCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTAAAAATA
* *
1708376 TATCAGTTTTATGACATAATAGGTCAACATAATGTATCGACACTTTTTAAATTTGTGTTGATACT
66 TA-CAGTTTTATGACAAAATAGGTCAACATAATGTATCGACACTTTTTAAATTTGTGTCGATACT
* * * * *
1708441 TTTGGTCCAGAATCATTACCCAACGAGGTACAAGCATAAAGTGTCGATACATTTAAAATTGTATT
130 TTTGGTCCAGAATCAATGCCCAACGAGGTGCACGCATAAAGTGTCGATACATTTAAAATTGTATC
* * *
1708506 GATCCCAAAAACATCAAAACCGATAATTATAATGTAATATGTAAATTTACAATGTATCCGGTAAA
195 GATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTAAA
*
1708571 AATATATCGATTTTATGATATAATAGGTCAACATAATGTATCGACACTTTTTAAATTTGTGTCGA
260 AATATA-CGATTTTATGATAGAATAGGTCAACATAATGTATCGACACTTTTTAAATTTGTGTCGA
* *
1708636 TACTTTTGGTCCAGAATCAATACCCAACGAGGTGCACGTATAAAGTGTTGATACATTTAAAATTG
324 TACTTTTGGTCCAGAATCAATGCCCAACGAGGTGCACGCATAAAGTGTTGATACATTTAAAATTG
* *
1708701 TATCGATCCC-AAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGA
389 TATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATATAACCGG
* * * * * *
1708765 TAAAAAAATATCGGTTTTATGATAGAATAGGTTAACATACTGTTTCGACACTTTTTAAATTTGTG
454 TAAAAATATACCGGTTTTATGACAAAATAGGTTAACATAATGTATCGACACTTTTTAAATTTGTG
1708830 TCGATACTTTTGGTCCAGAATCAATGCCCAACGAGGTGCACACATAAAGTGTCGATACATTTAAA
519 TCGATACTTTTGGTCCAGAATCAATGCCCAACGAGGTGCACACATAAAGTGTCGATACATTTAAA
*
1708895 ATTGTATCGATC
584 ATTATATCGATC
* *
1708907 CCATAAACATCGAAACCGATAATTATAATGTAATATGTAAATTTACAATGTAACCGGTAAAAATA
1 CCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTAAAAATA
* * * *
1708972 TACTGTTTTTATGATAGAATAGGTTAACATAATGTATCGACACTTTTTAAATTTGTGTCGATACT
66 TACAG-TTTTATGACAAAATAGGTCAACATAATGTATCGACACTTTTTAAATTTGTGTCGATACT
*
1709037 TTTGGTCAAGAATCAATGCCCAACGAGGTGCACGCATAAAGTGTCGATACATTTAAAATTGTATC
130 TTTGGTCCAGAATCAATGCCCAACGAGGTGCACGCATAAAGTGTCGATACATTTAAAATTGTATC
* * * * *
1709102 GATTCCAAAAACATTGAAACCGATAATTATAATGTAACAGGTAAATTTATAATGTAACTGGTAAA
195 GATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTAAA
* * *
1709167 AGTATACCAGTTTTATGATAGAATAGGTCAACATAATTTATCGACACTTTTTAAATTTGTGTCGA
260 AATATACGA-TTTTATGATAGAATAGGTCAACATAATGTATCGACACTTTTTAAATTTGTGTCGA
1709232 TACTTTTGGTCCAGAATCAATGCCCAACGAGGTGCACGCATAAAGTGTTGATACATTTAAAATTG
324 TACTTTTGGTCCAGAATCAATGCCCAACGAGGTGCACGCATAAAGTGTTGATACATTTAAAATTG
*
1709297 TATCGCTCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATATAACCGG
389 TATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATATAACCGG
* * * * * *
1709362 TAGAAATATACCAGTTTAATTAGAAAATAGGTTAACATAATGTATCGATACTTTTTAAATT
454 TAAAAATATACCGGTTTTATGACAAAATAGGTTAACATAATGTATCGACACTTTTTAAATT
1709423 CTATCAATAT
Statistics
Matches: 1008, Mismatches: 97, Indels: 10
0.90 0.09 0.01
Matches are distributed among these distances:
593 53 0.05
594 200 0.20
595 102 0.10
596 551 0.55
597 102 0.10
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (595 bp):
CCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTAAAAATA
TACAGTTTTATGACAAAATAGGTCAACATAATGTATCGACACTTTTTAAATTTGTGTCGATACTT
TTGGTCCAGAATCAATGCCCAACGAGGTGCACGCATAAAGTGTCGATACATTTAAAATTGTATCG
ATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTAAAA
ATATACGATTTTATGATAGAATAGGTCAACATAATGTATCGACACTTTTTAAATTTGTGTCGATA
CTTTTGGTCCAGAATCAATGCCCAACGAGGTGCACGCATAAAGTGTTGATACATTTAAAATTGTA
TCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATATAACCGGTA
AAAATATACCGGTTTTATGACAAAATAGGTTAACATAATGTATCGACACTTTTTAAATTTGTGTC
GATACTTTTGGTCCAGAATCAATGCCCAACGAGGTGCACACATAAAGTGTCGATACATTTAAAAT
TATATCGATC
Found at i:1709153 original size:20 final size:20
Alignment explanation
Indices: 1709128--1709166 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
1709118 AAACCGATAA
1709128 TTATAATGTAACAGGTAAAT
1 TTATAATGTAACAGGTAAAT
*
1709148 TTATAATGTAACTGGTAAA
1 TTATAATGTAACAGGTAAA
1709167 AGTATACCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.44, C:0.05, G:0.15, T:0.36
Consensus pattern (20 bp):
TTATAATGTAACAGGTAAAT
Found at i:1709172 original size:20 final size:20
Alignment explanation
Indices: 1709129--1709172 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
1709119 AACCGATAAT
**
1709129 TATAATGTAACAGGTAAATT
1 TATAATGTAACAGGTAAAAG
*
1709149 TATAATGTAACTGGTAAAAG
1 TATAATGTAACAGGTAAAAG
1709169 TATA
1 TATA
1709173 CCAGTTTTAT
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:0.45, C:0.05, G:0.16, T:0.34
Consensus pattern (20 bp):
TATAATGTAACAGGTAAAAG
Found at i:1711272 original size:2 final size:2
Alignment explanation
Indices: 1711265--1711310 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
1711255 AAATGTATCG
1711265 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
1711307 AT AT
1 AT AT
1711311 TCCACACTTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1711933 original size:23 final size:23
Alignment explanation
Indices: 1711907--1711957 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
1711897 TAAGTAATTA
** *
1711907 ACCTATTTTATTATATAAGCGCT
1 ACCTATTACATTATATAAGCACT
*
1711930 ACCTATTACGTTATATAAGCACT
1 ACCTATTACATTATATAAGCACT
1711953 ACCTA
1 ACCTA
1711958 ATATGTTATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.33, C:0.22, G:0.08, T:0.37
Consensus pattern (23 bp):
ACCTATTACATTATATAAGCACT
Found at i:1711965 original size:23 final size:23
Alignment explanation
Indices: 1711917--1711966 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
1711907 ACCTATTTTA
* *
1711917 TTATATAAGCGCTACCTATTACG
1 TTATATAAGCACTACCTAATACG
*
1711940 TTATATAAGCACTACCTAATATG
1 TTATATAAGCACTACCTAATACG
1711963 TTAT
1 TTAT
1711967 TGTACTTGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.10, T:0.38
Consensus pattern (23 bp):
TTATATAAGCACTACCTAATACG
Found at i:1715157 original size:22 final size:20
Alignment explanation
Indices: 1715107--1715170 Score: 83
Period size: 20 Copynumber: 3.1 Consensus size: 20
1715097 AATCATATTG
1715107 CCCAGGGGGTACAGATTCCC
1 CCCAGGGGGTACAGATTCCC
* *
1715127 CCCAAGGGGAACAGATTACCC
1 CCCAGGGGGTACAGATT-CCC
*
1715148 CCACAGGGGGTACCGATTCCC
1 CC-CAGGGGGTACAGATTCCC
1715169 CC
1 CC
1715171 TGTCTAACGG
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
20 15 0.41
21 10 0.27
22 12 0.32
ACGTcount: A:0.23, C:0.38, G:0.27, T:0.12
Consensus pattern (20 bp):
CCCAGGGGGTACAGATTCCC
Found at i:1717388 original size:16 final size:14
Alignment explanation
Indices: 1717367--1717411 Score: 54
Period size: 16 Copynumber: 3.0 Consensus size: 14
1717357 TATTTTAAAT
1717367 TTTAAATATAAACATA
1 TTTAAATATAAA-A-A
1717383 TTTAAATATTAAAAA
1 TTTAAATA-TAAAAA
*
1717398 ATTAAATATAAAAA
1 TTTAAATATAAAAA
1717412 ATAGTAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
14 6 0.22
15 8 0.30
16 9 0.33
17 4 0.15
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (14 bp):
TTTAAATATAAAAA
Found at i:1717404 original size:15 final size:14
Alignment explanation
Indices: 1717368--1717413 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
1717358 ATTTTAAATT
*
1717368 TTAAATATAAACATAT
1 TTAAATATAAA-A-AA
1717384 TTAAATATTAAAAAA
1 TTAAATA-TAAAAAA
1717399 TTAAATATAAAAAA
1 TTAAATATAAAAAA
1717413 T
1 T
1717414 AGTAAAAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 8 0.29
15 8 0.29
16 8 0.29
17 4 0.14
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (14 bp):
TTAAATATAAAAAA
Found at i:1717406 original size:23 final size:23
Alignment explanation
Indices: 1717340--1717406 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 23
1717330 ATTTAATTTT
1717340 TATTAAAAAATAAAAATTATTTTAAA
1 TATTAAAAAAT-AAAA-TA-TTTAAA
* *
1717366 T-TTTAAATATAAACATATTTAAA
1 TATTAAAAAATAAA-ATATTTAAA
*
1717389 TATTAAAAAATTAAATAT
1 TATTAAAAAATAAAATAT
1717407 AAAAAATAGT
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
23 11 0.32
24 14 0.41
25 8 0.24
26 1 0.03
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.40
Consensus pattern (23 bp):
TATTAAAAAATAAAATATTTAAA
Found at i:1717425 original size:31 final size:31
Alignment explanation
Indices: 1717368--1717426 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
1717358 ATTTTAAATT
* * *
1717368 TTAAATATAAACATATTTAAATATTAAAAAA
1 TTAAATATAAAAATATGTAAAAATTAAAAAA
1717399 TTAAATATAAAAA-ATAGTAAAAATTAAA
1 TTAAATATAAAAATAT-GTAAAAATTAAA
1717427 TTAACTTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 2 0.08
31 22 0.92
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (31 bp):
TTAAATATAAAAATATGTAAAAATTAAAAAA
Found at i:1717827 original size:25 final size:25
Alignment explanation
Indices: 1717772--1717829 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
1717762 AAACATAATA
1717772 AATT-TCGACTAATCTAAAAATTAT
1 AATTCTCGACTAATCTAAAAATTAT
* * *
1717796 AAGTCTCGACTAAT-TTAAATTATAT
1 AATTCTCGACTAATCTAAAAAT-TAT
1717821 AATTCTCGA
1 AATTCTCGA
1717830 TTGATTCAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
24 8 0.29
25 20 0.71
ACGTcount: A:0.41, C:0.14, G:0.07, T:0.38
Consensus pattern (25 bp):
AATTCTCGACTAATCTAAAAATTAT
Found at i:1718020 original size:15 final size:14
Alignment explanation
Indices: 1718000--1718050 Score: 52
Period size: 15 Copynumber: 3.6 Consensus size: 14
1717990 AAGTATATGC
1718000 AATTTTTAGTAATTT
1 AATTTTTAGT-ATTT
*
1718015 AATTTTTTGT-TTT
1 AATTTTTAGTATTT
1718028 AGTATTTTTA-TATTT
1 A--ATTTTTAGTATTT
1718043 AATTTTTA
1 AATTTTTA
1718051 AATACCAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
13 11 0.35
14 1 0.03
15 19 0.61
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (14 bp):
AATTTTTAGTATTT
Found at i:1718430 original size:23 final size:25
Alignment explanation
Indices: 1718404--1718450 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 25
1718394 TATAAGTATA
1718404 TATTAATAAAA-A-TATAT-TAATTT
1 TATTAA-AAAATATTATATATAATTT
1718427 TATTAAAAAATATTATATATAATT
1 TATTAAAAAATATTATATATAATT
1718451 AAAATGTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 4 0.19
23 7 0.33
24 5 0.24
25 5 0.24
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (25 bp):
TATTAAAAAATATTATATATAATTT
Found at i:1718451 original size:20 final size:21
Alignment explanation
Indices: 1718400--1718454 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 21
1718390 AAATTATAAG
1718400 TATATATTAA-TAAAAATATAT
1 TATATA-TAATTAAAAATATAT
* *
1718421 TA-ATTTTATTAAAAA-ATAT
1 TATATATAATTAAAAATATAT
1718440 TATATATAATTAAAA
1 TATATATAATTAAAA
1718455 TGTTAATATA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
19 8 0.29
20 18 0.64
21 2 0.07
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
TATATATAATTAAAAATATAT
Found at i:1718454 original size:19 final size:20
Alignment explanation
Indices: 1718400--1718455 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 20
1718390 AAATTATAAG
*
1718400 TATATATTAATAAAAATATAT
1 TATATA-TAATTAAAATATAT
* * *
1718421 TA-ATTTTATTAAAAAATAT
1 TATATATAATTAAAATATAT
1718440 TATATATAATTAAAAT
1 TATATATAATTAAAAT
1718456 GTTAATATAA
Statistics
Matches: 27, Mismatches: 7, Indels: 3
0.73 0.19 0.08
Matches are distributed among these distances:
19 13 0.48
20 12 0.44
21 2 0.07
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
TATATATAATTAAAATATAT
Found at i:1720485 original size:3 final size:3
Alignment explanation
Indices: 1720477--1720504 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
1720467 TGCCTGGGGT
1720477 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1720505 ATAAATAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:1720936 original size:20 final size:20
Alignment explanation
Indices: 1720919--1720969 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
1720909 TGAAAAAATC
1720919 AACCAAATCAGTAAAAAAAAA
1 AACCAAATCAGT-AAAAAAAA
*
1720940 AACCAAATCAGTCAAAAAAA
1 AACCAAATCAGTAAAAAAAA
1720960 AACCAAATCA
1 AACCAAATCA
1720970 ACCAACCCAT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.67, C:0.20, G:0.04, T:0.10
Consensus pattern (20 bp):
AACCAAATCAGTAAAAAAAA
Found at i:1729451 original size:43 final size:40
Alignment explanation
Indices: 1729348--1729451 Score: 104
Period size: 40 Copynumber: 2.5 Consensus size: 40
1729338 AAATAAGGCT
1729348 AGACTTCCTCAACACGAAGAAGCAATGTCATCTAAAGACC
1 AGACTTCCTCAACACGAAGAAGCAATGTCATCTAAAGACC
** * *
1729388 AGA-TCTCCTCAATTCGAAGAAGCATTGTCATCCTCAGACA-ATC
1 AGACT-TCCTCAACACGAAGAAGCAATGTCAT-CT-A-A-AGACC
*
1729431 AGACTTTCTCAACACGAAGAA
1 AGACTTCCTCAACACGAAGAA
1729452 ACTGTGTTGT
Statistics
Matches: 51, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
39 1 0.02
40 26 0.51
41 2 0.04
42 1 0.02
43 19 0.37
44 2 0.04
ACGTcount: A:0.38, C:0.27, G:0.14, T:0.21
Consensus pattern (40 bp):
AGACTTCCTCAACACGAAGAAGCAATGTCATCTAAAGACC
Found at i:1737159 original size:23 final size:24
Alignment explanation
Indices: 1737118--1737168 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
1737108 ACCCCGCTTG
**
1737118 AGAAACAAGAAAATGAAGAGAA-AA
1 AGAAACAAGAAAAAAAAGA-AAGAA
1737142 AGAAA-AAGAAAAAAAAGAAAGAA
1 AGAAACAAGAAAAAAAAGAAAGAA
1737165 AGAA
1 AGAA
1737169 TGAAGCCTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 2 0.08
23 17 0.71
24 5 0.21
ACGTcount: A:0.76, C:0.02, G:0.20, T:0.02
Consensus pattern (24 bp):
AGAAACAAGAAAAAAAAGAAAGAA
Found at i:1743913 original size:21 final size:21
Alignment explanation
Indices: 1743889--1743930 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1743879 AAATTTGTTC
*
1743889 ATATAAT-TAAATATAAAATAA
1 ATATAATAT-AATAAAAAATAA
1743910 ATATAATATAATAAAAAATAA
1 ATATAATATAATAAAAAATAA
1743931 TTTTACATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (21 bp):
ATATAATATAATAAAAAATAA
Found at i:1747466 original size:20 final size:21
Alignment explanation
Indices: 1747418--1747475 Score: 68
Period size: 20 Copynumber: 2.9 Consensus size: 21
1747408 TTGAACAGTG
*
1747418 GGGGGAATCGA-TACC-CCTA
1 GGGGGAATCGATTCCCTCCTA
*
1747437 GGGGGAATCGGTTCCCTCCTA
1 GGGGGAATCGATTCCCTCCTA
*
1747458 -GGGGTATCGATTCCCTCC
1 GGGGGAATCGATTCCCTCC
1747476 GAGCATACTG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
19 10 0.30
20 19 0.58
21 4 0.12
ACGTcount: A:0.17, C:0.29, G:0.31, T:0.22
Consensus pattern (21 bp):
GGGGGAATCGATTCCCTCCTA
Found at i:1747893 original size:24 final size:24
Alignment explanation
Indices: 1747862--1747910 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
1747852 AACACTTCTC
1747862 CCCTTTAAAAACACTTTAATATTT
1 CCCTTTAAAAACACTTTAATATTT
1747886 CCCTTTAAAAACACTTTAATATTT
1 CCCTTTAAAAACACTTTAATATTT
1747910 C
1 C
1747911 TCCCCTTTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (24 bp):
CCCTTTAAAAACACTTTAATATTT
Found at i:1749694 original size:22 final size:23
Alignment explanation
Indices: 1749655--1749701 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
1749645 TCCCTCAGGA
1749655 GGAATCAGTTCCCATTCAAAGGG
1 GGAATCAGTTCCCATTCAAAGGG
* *
1749678 GGAATCAG-TCCCCTTCAATGGG
1 GGAATCAGTTCCCATTCAAAGGG
1749700 GG
1 GG
1749702 TATCGATTCC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.26, C:0.23, G:0.30, T:0.21
Consensus pattern (23 bp):
GGAATCAGTTCCCATTCAAAGGG
Found at i:1749712 original size:23 final size:22
Alignment explanation
Indices: 1749655--1749712 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 22
1749645 TCCCTCAGGA
1749655 GGAATCAGTTCCCATTCAAAGGG
1 GGAATCA-TTCCCATTCAAAGGG
* * *
1749678 GGAATCAGTCCCCTTCAATGGG
1 GGAATCATTCCCATTCAAAGGG
*
1749700 GGTATCGATTCCC
1 GGAATC-ATTCCC
1749713 TTGCACTAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
22 17 0.59
23 12 0.41
ACGTcount: A:0.24, C:0.26, G:0.26, T:0.24
Consensus pattern (22 bp):
GGAATCATTCCCATTCAAAGGG
Found at i:1755544 original size:30 final size:30
Alignment explanation
Indices: 1755509--1755837 Score: 259
Period size: 30 Copynumber: 11.2 Consensus size: 30
1755499 GTGGTTGTTA
* *
1755509 TGAAAGTGGTGGTGTAGAAGTGGATAATGC
1 TGAAAGTGGTAGTGTAGAAATGGATAATGC
* * *
1755539 TGAAAGTGGTGGTGTTGAAATGGAT-ATGA
1 TGAAAGTGGTAGTGTAGAAATGGATAATGC
* * *
1755568 TGAAAGTGGTGGTGCAGAAATGGATACTGC
1 TGAAAGTGGTAGTGTAGAAATGGATAATGC
* * * * *
1755598 T-AAAATGGGTAGTGTAGAAAGGGACACTAC
1 TGAAAGT-GGTAGTGTAGAAATGGATAATGC
* * *
1755628 TGAAA-TGGGTAGTGTTGAAAGGGAAAATGC
1 TGAAAGT-GGTAGTGTAGAAATGGATAATGC
*
1755658 TGAAAGTGGT-GTGTA-AAATGGATAGTGC
1 TGAAAGTGGTAGTGTAGAAATGGATAATGC
* * *
1755686 TGAAAGTGATGGTCTAGAAATGGATAATGC
1 TGAAAGTGGTAGTGTAGAAATGGATAATGC
* *
1755716 TGATA-TGGGTAGTGTAGAAAGGGATAATGC
1 TGAAAGT-GGTAGTGTAGAAATGGATAATGC
* *
1755746 TGAAA-TGGGTAGTGTAGAAA-GAGACAATGT
1 TGAAAGT-GGTAGTGTAGAAATG-GATAATGC
* * **
1755776 TGAAA-TGGGTAGTGTTGAAA-GGACAATAT
1 TGAAAGT-GGTAGTGTAGAAATGGATAATGC
*
1755805 TGAAAGT-GT-GGGTAGAAATGGATAATGC
1 TGAAAGTGGTAGTGTAGAAATGGATAATGC
1755833 TGAAA
1 TGAAA
1755838 TGAGTAATGT
Statistics
Matches: 250, Mismatches: 39, Indels: 22
0.80 0.13 0.07
Matches are distributed among these distances:
27 7 0.03
28 32 0.13
29 52 0.21
30 155 0.62
31 4 0.02
ACGTcount: A:0.35, C:0.05, G:0.35, T:0.26
Consensus pattern (30 bp):
TGAAAGTGGTAGTGTAGAAATGGATAATGC
Found at i:1755705 original size:88 final size:90
Alignment explanation
Indices: 1755550--1755750 Score: 221
Period size: 88 Copynumber: 2.3 Consensus size: 90
1755540 GAAAGTGGTG
* * * * *
1755550 GTGTTGAAATGG-ATATGATGAAAGTGGTGGTGCAGAAATGGATACTGCTAAAATGGGTAGTGTA
1 GTGTTGAAAGGGAAAATGCTGAAAGTGGTGGTGCAGAAATGGATACTGCTAAAATGGATAGTCTA
*
1755614 GAAAGGGACACTACTGAAATGGGTA
66 GAAAGGGACAATACTGAAATGGGTA
* * * *
1755639 GTGTTGAAAGGGAAAATGCTGAAAGTGGT-GTGTA-AAATGGATAGTGCTGAAA-GTGATGGTCT
1 GTGTTGAAAGGGAAAATGCTGAAAGTGGTGGTGCAGAAATGGATACTGCTAAAATG-GATAGTCT
* * * *
1755701 AGAAATGGATAATGCTGATATGGGTA
65 AGAAAGGGACAATACTGAAATGGGTA
* *
1755727 GTGTAGAAAGGGATAATGCTGAAA
1 GTGTTGAAAGGGAAAATGCTGAAA
1755751 TGGGTAGTGT
Statistics
Matches: 94, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
87 1 0.01
88 64 0.68
89 15 0.16
90 14 0.15
ACGTcount: A:0.35, C:0.05, G:0.34, T:0.25
Consensus pattern (90 bp):
GTGTTGAAAGGGAAAATGCTGAAAGTGGTGGTGCAGAAATGGATACTGCTAAAATGGATAGTCTA
GAAAGGGACAATACTGAAATGGGTA
Found at i:1755726 original size:118 final size:118
Alignment explanation
Indices: 1755534--1755860 Score: 371
Period size: 118 Copynumber: 2.8 Consensus size: 118
1755524 AGAAGTGGAT
* *
1755534 AATGCTGAAAGTGGTGGTGTTGAAATGGATATGATGAAAGTGGTGGTGC-AGAAATGGATACTGC
1 AATGCTGAAAGTGGTAGTGTTGAAATGGATATGATGAAAGT-GTGGT-CTAGAAATGGATAATGC
* * * *
1755598 TAAAATGGGTAGTGTAGAAAGGGACACTACTGAAATGGGTAGTGTTGAAAGGGAA
64 TGAAATGGGTAGTGTAGAAAGGGACAATACTGAAATGGGTAGTGTAGAAAGAGAA
* *
1755653 AATGCTGAAAGTGGT-GTG-TAAAATGGATAGTGCTGAAAGTGATGGTCTAGAAATGGATAATGC
1 AATGCTGAAAGTGGTAGTGTTGAAATGGATA-TGATGAAAGTG-TGGTCTAGAAATGGATAATGC
* * * *
1755716 TGATATGGGTAGTGTAGAAAGGGATAATGCTGAAATGGGTAGTGTAGAAAGAGAC
64 TGAAATGGGTAGTGTAGAAAGGGACAATACTGAAATGGGTAGTGTAGAAAGAGAA
* * *
1755771 AATGTTGAAA-TGGGTAGTGTTGAAA-GGACAAT-ATTGAAAGTGTGG-GTAGAAATGGATAATG
1 AATGCTGAAAGT-GGTAGTGTTGAAATGGA-TATGA-TGAAAGTGTGGTCTAGAAATGGATAATG
* * * *
1755832 CTGAAATGAGTAATGTTGACAGGGACAAT
63 CTGAAATGGGTAGTGTAGAAAGGGACAAT
1755861 GAGAAAGACA
Statistics
Matches: 178, Mismatches: 22, Indels: 18
0.82 0.10 0.08
Matches are distributed among these distances:
117 51 0.29
118 92 0.52
119 30 0.17
120 5 0.03
ACGTcount: A:0.36, C:0.05, G:0.34, T:0.25
Consensus pattern (118 bp):
AATGCTGAAAGTGGTAGTGTTGAAATGGATATGATGAAAGTGTGGTCTAGAAATGGATAATGCTG
AAATGGGTAGTGTAGAAAGGGACAATACTGAAATGGGTAGTGTAGAAAGAGAA
Found at i:1755765 original size:15 final size:15
Alignment explanation
Indices: 1755720--1755765 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
1755710 TAATGCTGAT
1755720 ATGGGTAGTGTAGAA
1 ATGGGTAGTGTAGAA
*
1755735 A-GGGATAATGCT-GAA
1 ATGGG-TAGTG-TAGAA
1755750 ATGGGTAGTGTAGAA
1 ATGGGTAGTGTAGAA
1755765 A
1 A
1755766 GAGACAATGT
Statistics
Matches: 25, Mismatches: 2, Indels: 8
0.71 0.06 0.23
Matches are distributed among these distances:
14 4 0.16
15 17 0.68
16 4 0.16
ACGTcount: A:0.37, C:0.02, G:0.37, T:0.24
Consensus pattern (15 bp):
ATGGGTAGTGTAGAA
Found at i:1758930 original size:22 final size:22
Alignment explanation
Indices: 1758898--1758939 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
1758888 CTTACAGTTC
1758898 AATGCAAAATG-AAGAAAAATTA
1 AATGCAAAATGCAA-AAAAATTA
*
1758920 AATGCACAATGCAAAAAAAT
1 AATGCAAAATGCAAAAAAAT
1758940 CTAAGTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.62, C:0.10, G:0.12, T:0.17
Consensus pattern (22 bp):
AATGCAAAATGCAAAAAAATTA
Found at i:1760956 original size:15 final size:17
Alignment explanation
Indices: 1760924--1760957 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
1760914 CCCCCTATAT
1760924 ATTATTTTGTTAATTGA
1 ATTATTTTGTTAATTGA
1760941 ATTATTTT-TT-ATTGA
1 ATTATTTTGTTAATTGA
1760956 AT
1 AT
1760958 AAAATAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 2 0.12
17 8 0.47
ACGTcount: A:0.29, C:0.00, G:0.09, T:0.62
Consensus pattern (17 bp):
ATTATTTTGTTAATTGA
Found at i:1762525 original size:14 final size:15
Alignment explanation
Indices: 1762506--1762536 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
1762496 TTCTTTTACA
1762506 TATCCATTATA-TAT
1 TATCCATTATATTAT
1762520 TATCCATTATATTAT
1 TATCCATTATATTAT
1762535 TA
1 TA
1762537 ATCTTCTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.69
15 5 0.31
ACGTcount: A:0.35, C:0.13, G:0.00, T:0.52
Consensus pattern (15 bp):
TATCCATTATATTAT
Found at i:1762840 original size:3 final size:3
Alignment explanation
Indices: 1762832--1762868 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
1762822 TCAAGCAATA
*
1762832 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TGT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1762869 GTCACAAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:1762916 original size:6 final size:6
Alignment explanation
Indices: 1762905--1762932 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
1762895 TTAAATATTT
1762905 AAAACC AAAACC AAAACC AAAACC AAAA
1 AAAACC AAAACC AAAACC AAAACC AAAA
1762933 TACAAAATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.71, C:0.29, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAACC
Found at i:1776552 original size:118 final size:117
Alignment explanation
Indices: 1776327--1776667 Score: 477
Period size: 118 Copynumber: 2.9 Consensus size: 117
1776317 AACATTTTTG
* * *
1776327 AGAAAGGGTTCGTAATGAGAAGAACTCATCCGATAAGGGAGAAGAGGTTCATAATGAGAATAACT
1 AGAAA-GGTTCGTAATAAGAAGAACTCATCCGATAAGGGAGAA-AAGTTCATAATGAGAAGAACT
* ** *
1776392 TATTCAACCTTAGCTCGATTCCATCATAGAAGAAGGTGGATCATTATTTTCAAT
64 TATTCAACCTTAGCTCGATTCCATCACAGAAGAAGGTGGATCAACATTTCCAAT
* * ** *
1776446 -GGAAGAGTTCTTAATAAGAAGAACTCATATGATAAGGGAGAAACTGTTCATAATGAGAAGAACT
1 AGAAAG-GTTCGTAATAAGAAGAACTCATCCGATAAGGGAGAAA-AGTTCATAATGAGAAGAACT
*
1776510 TATTCAACCTTAGCTCGATTCCATCACAGAAGGAGGTGGATCAACATTTCCAAT
64 TATTCAACCTTAGCTCGATTCCATCACAGAAGAAGGTGGATCAACATTTCCAAT
* *
1776564 AGAAAGGTTCGTAATAAGAAGAACTCATCCGATAAGGGAGAAAAAATTTATAATGAGAAGAACTT
1 AGAAAGGTTCGTAATAAGAAGAACTCATCCGATAAGGGAG-AAAAGTTCATAATGAGAAGAACTT
* *
1776629 ATTCAACCTTAGCTCGATTCCATCACATAAGAAGTTGGA
65 ATTCAACCTTAGCTCGATTCCATCACAGAAGAAGGTGGA
1776668 ACATCATTGA
Statistics
Matches: 196, Mismatches: 22, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
117 2 0.01
118 187 0.95
119 7 0.04
ACGTcount: A:0.39, C:0.15, G:0.21, T:0.26
Consensus pattern (117 bp):
AGAAAGGTTCGTAATAAGAAGAACTCATCCGATAAGGGAGAAAAGTTCATAATGAGAAGAACTTA
TTCAACCTTAGCTCGATTCCATCACAGAAGAAGGTGGATCAACATTTCCAAT
Found at i:1784115 original size:11 final size:11
Alignment explanation
Indices: 1784099--1784133 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
1784089 TATAGATTCC
*
1784099 CTGCTACAGTA
1 CTGCTACAATA
1784110 CTGCTACAATA
1 CTGCTACAATA
*
1784121 CTACTACAATA
1 CTGCTACAATA
1784132 CT
1 CT
1784134 TTCATAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.34, C:0.29, G:0.09, T:0.29
Consensus pattern (11 bp):
CTGCTACAATA
Found at i:1784677 original size:31 final size:31
Alignment explanation
Indices: 1784640--1784735 Score: 113
Period size: 31 Copynumber: 3.1 Consensus size: 31
1784630 GAACCCCGAC
* *
1784640 AACTGTCCATAGGTCCCGAAGAACCTAGGTA
1 AACTGTCCATATGTCCCGAAGAACATAGGTA
* **
1784671 AACTGTCCATATGTTCCTTAGAACATAGGTA
1 AACTGTCCATATGTCCCGAAGAACATAGGTA
* *
1784702 TACTGTCCATATGTCTCGAA-AGACATAGGTA
1 AACTGTCCATATGTCCCGAAGA-ACATAGGTA
1784733 AAC
1 AAC
1784736 CCTCGACTCT
Statistics
Matches: 53, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
30 1 0.02
31 52 0.98
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (31 bp):
AACTGTCCATATGTCCCGAAGAACATAGGTA
Found at i:1793290 original size:20 final size:20
Alignment explanation
Indices: 1793265--1793367 Score: 100
Period size: 20 Copynumber: 4.9 Consensus size: 20
1793255 TTTTGGTGCA
1793265 GAGGGAATCGATCCCCCCAT
1 GAGGGAATCGATCCCCCCAT
1793285 GAGGGAATCGATCCCCCCAT
1 GAGGGAATCGATCCCCCCAT
* **
1793305 GAGGGAACCGATTCCCCCTTT
1 GAGGGAATCGA-TCCCCCCAT
*
1793326 GAAGGGGAACCGATTCCCCCCA-
1 G-A-GGGAATCGA-TCCCCCCAT
*
1793348 CAGGGGAATCGATACCCCCC
1 GA-GGGAATCGAT-CCCCCC
1793368 TGGGGTTCTG
Statistics
Matches: 72, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
20 31 0.43
21 24 0.33
22 1 0.01
23 16 0.22
ACGTcount: A:0.24, C:0.36, G:0.25, T:0.15
Consensus pattern (20 bp):
GAGGGAATCGATCCCCCCAT
Found at i:1793354 original size:21 final size:21
Alignment explanation
Indices: 1793328--1793367 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1793318 CCCCCTTTGA
*
1793328 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
1793349 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
1793368 TGGGGTTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:1800236 original size:31 final size:31
Alignment explanation
Indices: 1800182--1800253 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 31
1800172 GAACCTCGGC
*
1800182 AACTGTCCATAGGTCCCGTAGAACCTAGGTA
1 AACTGTCCATAGGTCCCGTAGAACATAGGTA
* *
1800213 AACTGTCCATATGTTCC-TAAGAACATAGGTA
1 AACTGTCCATAGGTCCCGT-AGAACATAGGTA
* *
1800244 TACTATCCAT
1 AACTGTCCAT
1800254 TTGTCTTGAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
30 1 0.03
31 34 0.97
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.28
Consensus pattern (31 bp):
AACTGTCCATAGGTCCCGTAGAACATAGGTA
Found at i:1802731 original size:21 final size:21
Alignment explanation
Indices: 1802683--1802734 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
1802673 TAAGTTATTC
* *
1802683 ATATCCTATTATTTATTTATC
1 ATATCTTATTATTTATTTATA
*
1802704 TTATCTTATTATTT-TTTATA
1 ATATCTTATTATTTATTTATA
1802724 ATATTCTTATT
1 ATA-TCTTATT
1802735 TTCTTAATCT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
20 7 0.27
21 19 0.73
ACGTcount: A:0.27, C:0.10, G:0.00, T:0.63
Consensus pattern (21 bp):
ATATCTTATTATTTATTTATA
Found at i:1803111 original size:21 final size:21
Alignment explanation
Indices: 1803064--1803113 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
1803054 TAACAAATGA
1803064 GTGACATCTTGATCAGTCACG
1 GTGACATCTTGATCAGTCACG
**
1803085 ACGACATCTTGATCAGTCACG
1 GTGACATCTTGATCAGTCACG
1803106 GTGACATC
1 GTGACATC
1803114 AAACTAACCT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (21 bp):
GTGACATCTTGATCAGTCACG
Found at i:1803829 original size:16 final size:16
Alignment explanation
Indices: 1803808--1803846 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
1803798 GGTATTATCC
* *
1803808 GACCTGTTTTTAACCT
1 GACCTGTTATGAACCT
1803824 GACCTGTTATGAACCT
1 GACCTGTTATGAACCT
1803840 GACCTGT
1 GACCTGT
1803847 AATTGACTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.36
Consensus pattern (16 bp):
GACCTGTTATGAACCT
Found at i:1804036 original size:16 final size:15
Alignment explanation
Indices: 1804015--1804046 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
1804005 AAATTAATAT
1804015 ATTTTTTATATTTATA
1 ATTTTTTAT-TTTATA
1804031 ATTTTTTATTTTATA
1 ATTTTTTATTTTATA
1804046 A
1 A
1804047 ATATATTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
ATTTTTTATTTTATA
Found at i:1804164 original size:18 final size:17
Alignment explanation
Indices: 1804143--1804221 Score: 54
Period size: 18 Copynumber: 4.4 Consensus size: 17
1804133 TAATTGAAAT
*
1804143 TATTAAATTAGATTTTTA
1 TATTAAATTA-ATTATTA
1804161 TATT-AATTATGATTATTA
1 TATTAAATTA--ATTATTA
* *
1804179 TATAAAAATTTAATTATAA
1 TAT-TAAA-TTAATTATTA
*
1804198 TCATTAAATTAATT-TTT
1 T-ATTAAATTAATTATTA
1804215 TATTAAA
1 TATTAAA
1804222 CTGAAAATTA
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
16 6 0.12
17 7 0.14
18 20 0.40
19 10 0.20
20 4 0.08
21 3 0.06
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (17 bp):
TATTAAATTAATTATTA
Found at i:1804510 original size:2 final size:2
Alignment explanation
Indices: 1804496--1804740 Score: 75
Period size: 2 Copynumber: 120.0 Consensus size: 2
1804486 ATATGTAAAC
* * *
1804496 TA TA TA -A TT TA TA TA TA AA T- TA TA GTT 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
** * * *
1804537 TA TA TA TA TA TA GC T- TT TA TA TA GTA TA TA CTA TA TA AA TA GTT
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA -TA
* **
1804581 TA TA TA GT- TCA T- TA -A TA AA CTA TA TA TA TA GT- TCA TA GG TA
1 TA TA TA -TA T-A TA TA TA TA TA -TA TA TA TA TA -TA T-A TA TA TA
* * * *
1804622 AA CTA TA TA GTT TA TA TA TA TA GT- TCA TA TA -A TA -A TG TA AA
1 TA -TA TA TA -TA TA TA TA TA TA -TA T-A TA TA TA TA TA TA TA TA
* * *
1804663 CTA TA TA TA T- TA CA TA GTA TA TA AA TA TCA -A CTA TA GTT TA TA
1 -TA TA TA TA TA TA TA TA -TA TA TA TA TA T-A TA -TA TA -TA TA TA
1804706 TA TA TA -A 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
1804741 GTTTGATATA
Statistics
Matches: 178, Mismatches: 34, Indels: 62
0.65 0.12 0.23
Matches are distributed among these distances:
1 13 0.07
2 144 0.81
3 21 0.12
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.45
Consensus pattern (2 bp):
TA
Found at i:1804524 original size:18 final size:19
Alignment explanation
Indices: 1804475--1804548 Score: 80
Period size: 18 Copynumber: 3.9 Consensus size: 19
1804465 AAAATTTTGT
* *
1804475 ATATATAGTTCATATGTAA
1 ATATATAGTTTATATATAA
*
1804494 ACTATATAATTTATATATAA
1 A-TATATAGTTTATATATAA
*
1804514 AT-TATAGTTTATATATAT
1 ATATATAGTTTATATATAA
*
1804532 ATATATA-TATATATATA
1 ATATATAGTTTATATATA
1804549 GCTTTTATAT
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
18 25 0.53
19 6 0.13
20 16 0.34
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (19 bp):
ATATATAGTTTATATATAA
Found at i:1804528 original size:29 final size:29
Alignment explanation
Indices: 1804496--1804586 Score: 91
Period size: 29 Copynumber: 3.1 Consensus size: 29
1804486 ATATGTAAAC
*
1804496 TATATAATTTATATATAAATTATAGTTTA
1 TATATAATATATATATAAATTATAGTTTA
*
1804525 TATAT-ATATATATATATATATATAGCTTT-
1 TATATAATATATATATAAAT-TATAG-TTTA
*
1804554 TATATAGTATATACTATATAA--ATAGTTTA
1 TATATAATATATA-TATA-AATTATAGTTTA
1804583 TATA
1 TATA
1804587 GTTCATTAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
28 15 0.29
29 23 0.44
30 9 0.17
31 4 0.08
32 1 0.02
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.49
Consensus pattern (29 bp):
TATATAATATATATATAAATTATAGTTTA
Found at i:1804587 original size:27 final size:27
Alignment explanation
Indices: 1804527--1804588 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 27
1804517 ATAGTTTATA
*
1804527 TATATA-TATATATATATATATAGCTTT
1 TATATAGTATATATATATAAATAGC-TT
1804554 TATATAGTATATACTATATAAATAG-TT
1 TATATAGTATATA-TATATAAATAGCTT
1804581 TATATAGT
1 TATATAGT
1804589 TCATTAATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
27 16 0.50
28 6 0.19
29 10 0.31
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.48
Consensus pattern (27 bp):
TATATAGTATATATATATAAATAGCTT
Found at i:1804769 original size:39 final size:39
Alignment explanation
Indices: 1804695--1804802 Score: 105
Period size: 39 Copynumber: 2.8 Consensus size: 39
1804685 AAATATCAAC
* * * * *
1804695 TATAGTTTATATATATAATAT-ATATATATATATATA-TA
1 TATAGTATATATATATAGT-TCATATGTAAACATATAGTA
*
1804733 TATA-TATAGTTTGATATAGTTCATATGTAAACATATAGTA
1 TATAGTATA-TAT-ATATAGTTCATATGTAAACATATAGTA
*
1804773 TATAGTTTATATATATAGTTCATATGTAAA
1 TATAGTATATATATATAGTTCATATGTAAA
1804803 TTACTAAACT
Statistics
Matches: 57, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
37 3 0.05
38 7 0.12
39 36 0.63
40 8 0.14
41 3 0.05
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.46
Consensus pattern (39 bp):
TATAGTATATATATATAGTTCATATGTAAACATATAGTA
Found at i:1804825 original size:39 final size:37
Alignment explanation
Indices: 1804733--1804826 Score: 91
Period size: 39 Copynumber: 2.4 Consensus size: 37
1804723 TATATATATA
* *
1804733 TATATATAGTT-TGATATAGTTCATATGTAAACATATAG
1 TATATATA-TTAT-ATATAGTTCATATGTAAACATAAAC
* *
1804771 TATATAGTTTATATATATAGTTCATATGTAAATTACTAAAC
1 TATATA-TAT-TATATATAGTTCATATGTAAA-CA-TAAAC
1804812 TATATATATTATATA
1 TATATATATTATATA
1804827 GTTTATACAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
38 7 0.15
39 26 0.57
40 4 0.09
41 9 0.20
ACGTcount: A:0.41, C:0.05, G:0.09, T:0.45
Consensus pattern (37 bp):
TATATATATTATATATAGTTCATATGTAAACATAAAC
Found at i:1804858 original size:148 final size:148
Alignment explanation
Indices: 1804625--1804919 Score: 343
Period size: 148 Copynumber: 2.0 Consensus size: 148
1804615 ATAGGTAAAC
*
1804625 TATATAGTTTATATATATAGTTCATATAATAATGTAAACTATATATATTACATAGTATATAAATA
1 TATATAGTTTATATATATAGTTCATATAATAATCTAAACTATATATATTACATAGTATATAAATA
* * *
1804690 TCAACTATAGTTTATATATATAATATATATA-TATATATATATA-TATATATAGTTT-GATATAG
66 TCAACTATAGTGTAAATATATAATATATATAGT-T-TACATATAGTATATATAGTTTAGATATAG
*
1804752 TTCATATGTAAAC-ATATAG
129 TTCATATATAAACTATATAG
* * * *
1804771 TATATAGTTTATATATATAGTTCATATGTAA-ATTACTAAACTATATATATTATATAGTTTATAC
1 TATATAGTTTATATATATAGTTCATA--TAATAAT-CTAAACTATATATATTACATAGTATATAA
** * * *
1804835 ATAT-AGTTCATA-TGTAAACTATATAGTATATATAGTTTACATATAGTATATATGGTTTATATA
63 ATATCAACT-ATAGTGTAAA-TATATAATATATATAGTTTACATATAGTATATATAGTTTAGATA
*
1804898 TAGTTTATATATAAACTATATA
126 TAGTTCATATATAAACTATATA
1804920 TAATTACATA
Statistics
Matches: 125, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
146 26 0.21
147 15 0.12
148 61 0.49
149 18 0.14
150 5 0.04
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.45
Consensus pattern (148 bp):
TATATAGTTTATATATATAGTTCATATAATAATCTAAACTATATATATTACATAGTATATAAATA
TCAACTATAGTGTAAATATATAATATATATAGTTTACATATAGTATATATAGTTTAGATATAGTT
CATATATAAACTATATAG
Found at i:1804867 original size:20 final size:21
Alignment explanation
Indices: 1804807--1804919 Score: 78
Period size: 20 Copynumber: 5.5 Consensus size: 21
1804797 TGTAAATTAC
1804807 TAAACTATATA-TATTATATAG
1 TAAACTATATAGTA-TATATAG
*
1804828 TTTATAC-ATATAGT-TCATAT-G
1 --TAAACTATATAGTAT-ATATAG
1804849 TAAACTATATAGTATATATAG
1 TAAACTATATAGTATATATAG
** *
1804870 TTTAC-ATATAGTATATATGG
1 TAAACTATATAGTATATATAG
** *
1804890 TTTA-TATATAGTTTATATA-
1 TAAACTATATAGTATATATAG
1804909 TAAACTATATA
1 TAAACTATATA
1804920 TAATTACATA
Statistics
Matches: 74, Mismatches: 9, Indels: 17
0.74 0.09 0.17
Matches are distributed among these distances:
19 6 0.08
20 47 0.64
21 7 0.09
22 9 0.12
23 5 0.07
ACGTcount: A:0.42, C:0.05, G:0.08, T:0.45
Consensus pattern (21 bp):
TAAACTATATAGTATATATAG
Found at i:1804868 original size:11 final size:11
Alignment explanation
Indices: 1804861--1804910 Score: 68
Period size: 11 Copynumber: 4.7 Consensus size: 11
1804851 AACTATATAG
1804861 TATATATAGTT
1 TATATATAGTT
*
1804872 TACATATAG--
1 TATATATAGTT
*
1804881 TATATATGGTT
1 TATATATAGTT
1804892 TATATATAGTT
1 TATATATAGTT
1804903 TATATATA
1 TATATATA
1804911 AACTATATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
9 7 0.21
11 26 0.79
ACGTcount: A:0.38, C:0.02, G:0.10, T:0.50
Consensus pattern (11 bp):
TATATATAGTT
Found at i:1804898 original size:40 final size:40
Alignment explanation
Indices: 1804812--1804908 Score: 103
Period size: 40 Copynumber: 2.4 Consensus size: 40
1804802 ATTACTAAAC
1804812 TATATATA-TTATATAGTTTATACATATAGTTCATATGTA
1 TATATATAGTTATATAGTTTATACATATAGTTCATATGTA
* *
1804851 AACTATATAGTATATATAG-TT-TACATATAGTAT-ATATGGTT
1 TA-TATATAGT-TATATAGTTTATACATATAGT-TCATAT-GTA
1804892 TATATATAGTTTATATA
1 TATATATAG-TTATATA
1804909 TAAACTATAT
Statistics
Matches: 49, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
39 1 0.02
40 33 0.67
41 8 0.16
42 7 0.14
ACGTcount: A:0.39, C:0.04, G:0.09, T:0.47
Consensus pattern (40 bp):
TATATATAGTTATATAGTTTATACATATAGTTCATATGTA
Found at i:1805038 original size:20 final size:20
Alignment explanation
Indices: 1804997--1805034 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1804987 ATATAATAAC
*
1804997 TAATTTATACATAATATATA
1 TAATTTATACATAATACATA
*
1805017 TAATTTATA-ATTATACAT
1 TAATTTATACATAATACAT
1805035 TATATAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (20 bp):
TAATTTATACATAATACATA
Found at i:1805166 original size:18 final size:18
Alignment explanation
Indices: 1805129--1805168 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
1805119 ATACAAACTC
* **
1805129 TATAGTTTATACATGGTA
1 TATAATTTATACATAATA
1805147 TATAATTTATACATAATA
1 TATAATTTATACATAATA
1805165 TATA
1 TATA
1805169 TACAGTTTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.45
Consensus pattern (18 bp):
TATAATTTATACATAATA
Found at i:1805216 original size:11 final size:11
Alignment explanation
Indices: 1805163--1805407 Score: 61
Period size: 11 Copynumber: 23.9 Consensus size: 11
1805153 TTATACATAA
*
1805163 TATATATACAG
1 TATATATATAG
*
1805174 TTTATATATAG
1 TATATATATAG
1805185 TATATAT-TAAG
1 TATATATAT-AG
*
1805196 -AAACTATATAG
1 TATA-TATATAG
* *
1805207 TTTATATATAA
1 TATATATATAG
* *
1805218 TATATATAGAT
1 TATATATATAG
* *
1805229 TATCTATAGTAC
1 TATATATA-TAG
* *
1805241 AATATAAATA-
1 TATATATATAG
*
1805251 TAAACTATATAG
1 TATA-TATATAG
*
1805263 TTTATATATA-
1 TATATATATAG
*
1805273 -ATATATATAC
1 TATATATATAG
1805283 T-T-TATATA-
1 TATATATATAG
*
1805291 TACATATAT--
1 TATATATATAG
*
1805300 TTTATATATAG
1 TATATATATAG
*
1805311 T-TATAT-TAA
1 TATATATATAG
1805320 TA-AT-TATA-
1 TATATATATAG
1805328 TA-AT-TATA-
1 TATATATATAG
*
1805336 CATAATATATAG
1 TAT-ATATATAG
1805348 T-T-TATATAG
1 TATATATATAG
1805357 TATATA-ATA-
1 TATATATATAG
*
1805366 -ATATAAATA-
1 TATATATATAG
*
1805375 TAAACTATATAG
1 TATA-TATATAG
* *
1805387 TTTATATATAC
1 TATATATATAG
*
1805398 TTTATATATA
1 TATATATATA
1805408 AACTATATAG
Statistics
Matches: 176, Mismatches: 33, Indels: 50
0.68 0.13 0.19
Matches are distributed among these distances:
8 16 0.09
9 39 0.22
10 24 0.14
11 85 0.48
12 12 0.07
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.45
Consensus pattern (11 bp):
TATATATATAG
Found at i:1805315 original size:17 final size:17
Alignment explanation
Indices: 1805258--1805317 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
1805248 ATATAAACTA
*
1805258 TATAGTTTATATATAAT
1 TATATTTTATATATAAT
1805275 ATATATACTTTATATATACA-
1 -TATAT--TTTATATATA-AT
*
1805295 TATATTTTATATATAGT
1 TATATTTTATATATAAT
1805312 TATATT
1 TATATT
1805318 AATAATTATA
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
17 16 0.44
18 4 0.11
19 5 0.14
20 10 0.28
21 1 0.03
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.53
Consensus pattern (17 bp):
TATATTTTATATATAAT
Found at i:1805344 original size:37 final size:38
Alignment explanation
Indices: 1805303--1805396 Score: 113
Period size: 39 Copynumber: 2.5 Consensus size: 38
1805293 CATATATTTT
* *
1805303 ATATATAG-TTATAT-TA-ATAATTATATAATTATACATA
1 ATATATAGTTTATATATATATAATAATATAAATATA-A-A
1805340 ATATATAGTTTATATAGTATATAATAATATAAATATAAA
1 ATATATAGTTTATATA-TATATAATAATATAAATATAAA
*
1805379 CTATATAGTTTATATATA
1 ATATATAGTTTATATATA
1805397 CTTTATATAT
Statistics
Matches: 50, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
37 8 0.16
38 8 0.16
39 16 0.32
40 3 0.06
41 15 0.30
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (38 bp):
ATATATAGTTTATATATATATAATAATATAAATATAAA
Found at i:1805416 original size:2 final size:2
Alignment explanation
Indices: 1805145--1805407 Score: 69
Period size: 2 Copynumber: 134.0 Consensus size: 2
1805135 TTATACATGG
* * * *
1805145 TA TA TA -A TT TA TA CA TA -A TA TA TA TA CA GTT TA TA TA TA GTA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA -TA
* * * *
1805187 TA TA T- TA -A GA AA CTA TA TA GTT TA TA TA TA -A TA TA TA TA GA
1 TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA
* * * * *
1805228 T- TA TC TA TA GTA CA -A TA TA AA TA TA AA CTA TA TA GTT TA TA
1 TA TA TA TA TA -TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA
* * *
1805269 TA TA -A TA TA TA TA CTT TA TA TA TA CA TA TA T- TT 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
*
1805310 GT- TA TA T- TA -A TA -A T- TA TA TA -A T- TA TA CA TA -A TA TA
1 -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
1805345 TA GTT TA TA TA GTA TA TA -A TA -A TA TA AA TA TA AA CTA TA TA
1 TA -TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
* *
1805386 GTT TA TA TA TA CTT TA TA TA TA
1 -TA TA TA TA TA -TA TA TA TA TA
1805408 AACTATATAG
Statistics
Matches: 188, Mismatches: 40, Indels: 66
0.64 0.14 0.22
Matches are distributed among these distances:
1 19 0.10
2 153 0.81
3 16 0.09
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.45
Consensus pattern (2 bp):
TA
Found at i:1806266 original size:26 final size:25
Alignment explanation
Indices: 1806237--1806286 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
1806227 AAGCATCAAA
* * *
1806237 TTTACCTGACTTGACATGTATCCGAT
1 TTTACCCGACCTGACA-GGATCCGAT
1806263 TTTACCCGACCTGACAGGATCCGA
1 TTTACCCGACCTGACAGGATCCGA
1806287 CTGATGCCTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (25 bp):
TTTACCCGACCTGACAGGATCCGAT
Found at i:1806434 original size:2 final size:2
Alignment explanation
Indices: 1806427--1806463 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
1806417 AAATAAATCC
1806427 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1806464 CTTTAAACTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1806677 original size:18 final size:18
Alignment explanation
Indices: 1806654--1806689 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
1806644 ATTTAAAATG
1806654 GTTATATATAATAATTTA
1 GTTATATATAATAATTTA
1806672 GTTATATATAATAATTTA
1 GTTATATATAATAATTTA
1806690 AAAAAAATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (18 bp):
GTTATATATAATAATTTA
Found at i:1808755 original size:18 final size:18
Alignment explanation
Indices: 1808715--1808757 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
1808705 TCCCTATATA
*
1808715 TATTTTTAGAGAAAACTG
1 TATTTTTAGAGAAAAATG
1808733 T-TTTTTAGAGGAAAAAT-
1 TATTTTTAGA-GAAAAATG
1808750 TATTTTTA
1 TATTTTTA
1808758 TTTATTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.37, C:0.02, G:0.14, T:0.47
Consensus pattern (18 bp):
TATTTTTAGAGAAAAATG
Found at i:1809999 original size:10 final size:10
Alignment explanation
Indices: 1809984--1810033 Score: 66
Period size: 10 Copynumber: 5.1 Consensus size: 10
1809974 ATTTAAATAA
1809984 ATAAACGAAC
1 ATAAACGAAC
1809994 ATAAACGAAC
1 ATAAACGAAC
1810004 AT-AACGAAC
1 ATAAACGAAC
** *
1810013 ACGAACAAAC
1 ATAAACGAAC
1810023 ATAAACGAAC
1 ATAAACGAAC
1810033 A
1 A
1810034 ACACAAACAC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
9 8 0.24
10 26 0.76
ACGTcount: A:0.60, C:0.22, G:0.10, T:0.08
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:1810011 original size:19 final size:20
Alignment explanation
Indices: 1809984--1810042 Score: 68
Period size: 19 Copynumber: 3.0 Consensus size: 20
1809974 ATTTAAATAA
* *
1809984 ATAAACGAACATAAACGAAC
1 ATAAACGAACACAAACAAAC
*
1810004 AT-AACGAACACGAACAAAC
1 ATAAACGAACACAAACAAAC
*
1810023 ATAAACGAACA-ACACAAAC
1 ATAAACGAACACAAACAAAC
1810042 A
1 A
1810043 CACAAAAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
19 23 0.70
20 10 0.30
ACGTcount: A:0.61, C:0.24, G:0.08, T:0.07
Consensus pattern (20 bp):
ATAAACGAACACAAACAAAC
Found at i:1810615 original size:30 final size:31
Alignment explanation
Indices: 1810566--1810625 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 31
1810556 TTAAATTTTT
*
1810566 TAATATAATTCTTTTTATATTCTTAAAATAC
1 TAATATAATTCTGTTTATATTCTTAAAATAC
1810597 TAATATAA-TCTGTTTATATTCTTAAAATA
1 TAATATAATTCTGTTTATATTCTTAAAATA
1810626 TTAAATTTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 20 0.71
31 8 0.29
ACGTcount: A:0.40, C:0.08, G:0.02, T:0.50
Consensus pattern (31 bp):
TAATATAATTCTGTTTATATTCTTAAAATAC
Found at i:1811882 original size:29 final size:29
Alignment explanation
Indices: 1811836--1811903 Score: 118
Period size: 29 Copynumber: 2.3 Consensus size: 29
1811826 AAGGCCTGCT
*
1811836 ATCAAAGCATGAAACTCAGGAAAACTGGA
1 ATCAAAGCACGAAACTCAGGAAAACTGGA
*
1811865 ATCAAAGCACGAACCTCAGGAAAACTGGA
1 ATCAAAGCACGAAACTCAGGAAAACTGGA
1811894 ATCAAAGCAC
1 ATCAAAGCAC
1811904 CCAAATGATT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.47, C:0.22, G:0.19, T:0.12
Consensus pattern (29 bp):
ATCAAAGCACGAAACTCAGGAAAACTGGA
Found at i:1813304 original size:20 final size:20
Alignment explanation
Indices: 1813279--1813316 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1813269 TTTAGCTAAT
1813279 TTTATTCTAAATATTTTAAG
1 TTTATTCTAAATATTTTAAG
*
1813299 TTTATTCTAAATTTTTTA
1 TTTATTCTAAATATTTTA
1813317 TGCTTTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.61
Consensus pattern (20 bp):
TTTATTCTAAATATTTTAAG
Found at i:1813516 original size:3 final size:3
Alignment explanation
Indices: 1813508--1813538 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
1813498 AAATATTTTT
*
1813508 ATA ATA ATA ATA ATA ATA ATA ATT ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1813539 ATTGTAACTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:1813887 original size:166 final size:167
Alignment explanation
Indices: 1813666--1813985 Score: 516
Period size: 166 Copynumber: 1.9 Consensus size: 167
1813656 ACAATTTATA
*
1813666 ACAAAAATTAATTTCTCAATATAAAAATTTATGACAAATAATATTTTTTCACAATAATAAATTGT
1 ACAAAAATTAATTTCTCAATATAAAAATTTATGACAAATAATATTTTTTCACAATAACAAATTGT
* * ** *
1813731 AACAAATTTATTTAGTCACAATAACATATTAAATTTAGTCAAAATAAGAAACTATGTCAAATTTA
66 AACAAATGTATTTAGTCACAACAACATATTAAATGCAGCCAAAATAAGAAACTATGTCAAATTTA
*
1813796 TTTAGTCACAATATTTTCTTAAAACAAATTTTTTTTG
131 TTTAGTCACAATATTTTCTCAAAACAAATTTTTTTTG
* * *
1813833 ACAAATATTAATTTTTCAATATAAAAA-TTATGTCAAATAATATTTTTTCACAATAACAAATTGT
1 ACAAAAATTAATTTCTCAATATAAAAATTTATGACAAATAATATTTTTTCACAATAACAAATTGT
* * *
1813897 AACAAATGTATTTAGTCATAACAACATATTAAGTGCAGCCAAAATAAGAAATTATGTCAAATTTA
66 AACAAATGTATTTAGTCACAACAACATATTAAATGCAGCCAAAATAAGAAACTATGTCAAATTTA
1813962 TTTAGTCACAATATTTTCTCAAAA
131 TTTAGTCACAATATTTTCTCAAAA
1813986 GAACAAATTA
Statistics
Matches: 140, Mismatches: 13, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
166 115 0.82
167 25 0.18
ACGTcount: A:0.46, C:0.11, G:0.06, T:0.38
Consensus pattern (167 bp):
ACAAAAATTAATTTCTCAATATAAAAATTTATGACAAATAATATTTTTTCACAATAACAAATTGT
AACAAATGTATTTAGTCACAACAACATATTAAATGCAGCCAAAATAAGAAACTATGTCAAATTTA
TTTAGTCACAATATTTTCTCAAAACAAATTTTTTTTG
Found at i:1816497 original size:19 final size:19
Alignment explanation
Indices: 1816469--1816514 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
1816459 TTAGACCTGT
*
1816469 TTAAAAAAATAAAATAAAA
1 TTAAATAAATAAAATAAAA
* *
1816488 TTAAATAAATAAATTATAA
1 TTAAATAAATAAAATAAAA
1816507 TATAAATA
1 T-TAAATA
1816515 TAAATAATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 17 0.74
20 6 0.26
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (19 bp):
TTAAATAAATAAAATAAAA
Found at i:1816511 original size:26 final size:25
Alignment explanation
Indices: 1816476--1816533 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 25
1816466 TGTTTAAAAA
1816476 AATAAAATAAA-ATTAAATAAATAAAT
1 AATAAAATAAATA-TAAAT-AATAAAT
* *
1816502 TATAATATAAATATAAATAATAAAT
1 AATAAAATAAATATAAATAATAAAT
1816527 AATAAAA
1 AATAAAA
1816534 ACTATATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
25 12 0.44
26 14 0.52
27 1 0.04
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (25 bp):
AATAAAATAAATATAAATAATAAAT
Found at i:1816523 original size:25 final size:24
Alignment explanation
Indices: 1816470--1816531 Score: 74
Period size: 25 Copynumber: 2.6 Consensus size: 24
1816460 TAGACCTGTT
*
1816470 TAAAAAAATAA-AATAAAATTAAA
1 TAAATAAATAATAATAAAATTAAA
*
1816493 TAAATAAATTATAATATAAATATAAA
1 TAAATAAATAATAATA-AAAT-TAAA
1816519 T-AATAAATAATAA
1 TAAATAAATAATAA
1816532 AAACTATATA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
23 9 0.27
24 4 0.12
25 15 0.45
26 5 0.15
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (24 bp):
TAAATAAATAATAATAAAATTAAA
Found at i:1816531 original size:36 final size:35
Alignment explanation
Indices: 1816475--1816545 Score: 83
Period size: 36 Copynumber: 2.0 Consensus size: 35
1816465 CTGTTTAAAA
*
1816475 AAATAAAATAAAATTAAATAAATAAAT-TATAATAT
1 AAATAAAATAAAAATAAATAAA-AAATATATAATAT
*
1816510 AAATATAAATAATAAAT-AATAAAAACTATATAATAT
1 AAATA-AAATAA-AAATAAATAAAAAATATATAATAT
1816546 TATATTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
35 8 0.26
36 20 0.65
37 3 0.10
ACGTcount: A:0.68, C:0.01, G:0.00, T:0.31
Consensus pattern (35 bp):
AAATAAAATAAAAATAAATAAAAAATATATAATAT
Found at i:1816626 original size:42 final size:41
Alignment explanation
Indices: 1816530--1816627 Score: 105
Period size: 40 Copynumber: 2.4 Consensus size: 41
1816520 AATAAATAAT
*
1816530 AAAAACTATATAATATTATATTTTTTAAAAGTAATATATTTTC
1 AAAAACTATAT-ATATTATATTTTTTAAAAG-AATATATTTTA
*
1816573 AAAAA-T-TATATATTATATATGTTTTCAAAA-AATCT-TTTTA
1 AAAAACTATATATATTATAT-T-TTTT-AAAAGAATATATTTTA
1816613 AAAAACTATATATAT
1 AAAAACTATATATAT
1816628 GTTTTCAAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
40 18 0.38
41 9 0.19
42 12 0.25
43 9 0.19
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (41 bp):
AAAAACTATATATATTATATTTTTTAAAAGAATATATTTTA
Found at i:1816627 original size:35 final size:35
Alignment explanation
Indices: 1816586--1816686 Score: 109
Period size: 35 Copynumber: 2.9 Consensus size: 35
1816576 AATTATATAT
1816586 TATATATGTTTTCAAAAAATCTTTTTAAAAAACTA
1 TATATATGTTTTCAAAAAATCTTTTTAAAAAACTA
* * *
1816621 TATATATGTTTTCAAAATAT-GTTTT-CAAAACTA
1 TATATATGTTTTCAAAAAATCTTTTTAAAAAACTA
*
1816654 TATTATATACATTTTC-AAAAATCGTTTTTAAAA
1 TA-TATAT--GTTTTCAAAAAATC-TTTTTAAAA
1816687 TTATATATAT
Statistics
Matches: 53, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
33 9 0.17
34 9 0.17
35 24 0.45
36 5 0.09
37 4 0.08
38 2 0.04
ACGTcount: A:0.43, C:0.09, G:0.04, T:0.45
Consensus pattern (35 bp):
TATATATGTTTTCAAAAAATCTTTTTAAAAAACTA
Done.