Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold119
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: 3173904
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 13 of 20
Found at i:2027585 original size:13 final size:13
Alignment explanation
Indices: 2027567--2027591 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2027557 TACAAAAAAA
2027567 TGTATCGATACAT
1 TGTATCGATACAT
2027580 TGTATCGATACA
1 TGTATCGATACA
2027592 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2027943 original size:52 final size:52
Alignment explanation
Indices: 2027882--2028055 Score: 278
Period size: 52 Copynumber: 3.3 Consensus size: 52
2027872 AGTGTCTACA
* *
2027882 ATACATGCAGGCAAATTTACCCAGATGTATCGATATACTATAAAATGTATTG
1 ATACATGCAGGCAAATTTACCCAGATGTATCGATACACTATAAAATGTATCG
*
2027934 ATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATAAAATGTATCG
1 ATACATGCAGGCAAATTTACCCAGATGTATCGATACACTATAAAATGTATCG
* *
2027986 ATACATGCAGGAAAATTTGCCCAGATGTATCGATACA-TAATAAAATGTATCG
1 ATACATGCAGGCAAATTTACCCAGATGTATCGATACACT-ATAAAATGTATCG
*
2028038 ATACATGCAGACAAATTT
1 ATACATGCAGGCAAATTT
2028056 TCATATTTCG
Statistics
Matches: 114, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
51 1 0.01
52 113 0.99
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.29
Consensus pattern (52 bp):
ATACATGCAGGCAAATTTACCCAGATGTATCGATACACTATAAAATGTATCG
Found at i:2029249 original size:13 final size:13
Alignment explanation
Indices: 2029231--2029256 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2029221 TACAGCAAGT
2029231 ATGTATCGATACA
1 ATGTATCGATACA
2029244 ATGTATCGATACA
1 ATGTATCGATACA
2029257 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2032436 original size:97 final size:97
Alignment explanation
Indices: 2032262--2032456 Score: 275
Period size: 97 Copynumber: 2.0 Consensus size: 97
2032252 GTTACGACAC
* * * *
2032262 CCATCAAAGTTTAAATCTTATTCTCGCTTAAATTGTCATCATTGGGGACATTCCAAGCCCATTTC
1 CCATCAAAGTTTAAATCTTATTCTCGCTTAAATTATCATCATCGGGGACACTCCAAGCCCATTCC
* *
2032327 TCCGAGGAGATACTCCAACCCCGCTTTTAAAT
66 TCCAAGGAGATACTCCAACACCGCTTTTAAAT
*
2032359 CCATCAAAGTTTAAATCTTATTCTTGCTTAAATTATCATCATCGGGGACACTCCAA-CCCTATTC
1 CCATCAAAGTTTAAATCTTATTCTCGCTTAAATTATCATCATCGGGGACACTCCAAGCCC-ATTC
* * * *
2032423 CTCTAAGGGGATACTCCAACACCGTTTTTTAAT
65 CTCCAAGGAGATACTCCAACACCGCTTTTAAAT
2032456 C
1 C
2032457 AAAAATTAAA
Statistics
Matches: 86, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
96 3 0.03
97 83 0.97
ACGTcount: A:0.28, C:0.27, G:0.12, T:0.33
Consensus pattern (97 bp):
CCATCAAAGTTTAAATCTTATTCTCGCTTAAATTATCATCATCGGGGACACTCCAAGCCCATTCC
TCCAAGGAGATACTCCAACACCGCTTTTAAAT
Found at i:2033449 original size:42 final size:43
Alignment explanation
Indices: 2033350--2033512 Score: 186
Period size: 43 Copynumber: 3.8 Consensus size: 43
2033340 CAATACCAAC
* *
2033350 AAGTTAGAAGGGTGTTGGCCAATATGAAACCATATGTATCAAT
1 AAGTTAGAAGGGTGTTGGCCAAGATGAAACCATATGTAACAAT
* * * *
2033393 AAGTTAGAAAGGTGTTAGCTAGGATGAAACCATATG-AACAAT
1 AAGTTAGAAGGGTGTTGGCCAAGATGAAACCATATGTAACAAT
* ** * *
2033435 AGGTTAGAAGGGTGTTTGGCCAAGATGAAACCATACATACCAAC
1 AAGTTAGAAGGGTG-TTGGCCAAGATGAAACCATATGTAACAAT
*
2033479 AAGTTAGAAGGGTATTGGCC-AGAATGAAACCATA
1 AAGTTAGAAGGGTGTTGGCCAAG-ATGAAACCATA
2033513 CGAAAAAAGG
Statistics
Matches: 100, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
42 19 0.19
43 65 0.65
44 16 0.16
ACGTcount: A:0.39, C:0.13, G:0.25, T:0.23
Consensus pattern (43 bp):
AAGTTAGAAGGGTGTTGGCCAAGATGAAACCATATGTAACAAT
Found at i:2033506 original size:86 final size:85
Alignment explanation
Indices: 2033352--2033512 Score: 223
Period size: 86 Copynumber: 1.9 Consensus size: 85
2033342 ATACCAACAA
* ** * * * * *
2033352 GTTAGAAGGGTGTTGGCCAATATGAAACCATATGTATCAATAAGTTAGAAAGGTGTTAGCTAGGA
1 GTTAGAAGGGTGTTGGCCAAGATGAAACCATACATACCAACAAGTTAGAAAGGTATTAGCCAGAA
2033417 TGAAACCATATGAACAATAG
66 TGAAACCATATGAACAATAG
* *
2033437 GTTAGAAGGGTGTTTGGCCAAGATGAAACCATACATACCAACAAGTTAGAAGGGTATTGGCCAGA
1 GTTAGAAGGGTG-TTGGCCAAGATGAAACCATACATACCAACAAGTTAGAAAGGTATTAGCCAGA
2033502 ATGAAACCATA
65 ATGAAACCATA
2033513 CGAAAAAAGG
Statistics
Matches: 65, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
85 12 0.18
86 53 0.82
ACGTcount: A:0.39, C:0.13, G:0.25, T:0.24
Consensus pattern (85 bp):
GTTAGAAGGGTGTTGGCCAAGATGAAACCATACATACCAACAAGTTAGAAAGGTATTAGCCAGAA
TGAAACCATATGAACAATAG
Found at i:2033602 original size:43 final size:42
Alignment explanation
Indices: 2033537--2033685 Score: 138
Period size: 43 Copynumber: 3.5 Consensus size: 42
2033527 GGTCGGGACA
** * *
2033537 AAACCATACAAACCAATGAGTTA-AAAGGGTGTTGGCCAAGATG
1 AAACCATACGTACTAATGAGTTAGAAA-GGTGTTGG-TAAGATG
* * **
2033580 AAACCATACGTACTAATTAGTTAGAAAGGTGTTAGGTAGGACA
1 AAACCATACGTACTAATGAGTTAGAAAGGTGTT-GGTAAGATG
* *
2033623 AAACCATATGTACTAATGAGTTAGAAAGGTGCTGGATAAGATG
1 AAACCATACGTACTAATGAGTTAGAAAGGTGTTGG-TAAGATG
* * *
2033666 AAACTATACGAACCAATGAG
1 AAACCATACGTACTAATGAG
2033686 GGAAAATTGA
Statistics
Matches: 85, Mismatches: 18, Indels: 6
0.78 0.17 0.06
Matches are distributed among these distances:
42 2 0.02
43 78 0.92
44 5 0.06
ACGTcount: A:0.42, C:0.13, G:0.23, T:0.22
Consensus pattern (42 bp):
AAACCATACGTACTAATGAGTTAGAAAGGTGTTGGTAAGATG
Found at i:2033900 original size:43 final size:43
Alignment explanation
Indices: 2033852--2034065 Score: 232
Period size: 43 Copynumber: 5.0 Consensus size: 43
2033842 AGGAAAGGTG
*
2033852 TTGGTCGGGACGAAACCATATGTACCAACAAGTTAGAAGGGTA
1 TTGGTCGGGACGAAACCATACGTACCAACAAGTTAGAAGGGTA
* * * *
2033895 TTGGTCGGGACGAAACCATACATACCAATAAGTTAGAAAGATA
1 TTGGTCGGGACGAAACCATACGTACCAACAAGTTAGAAGGGTA
** * * * *
2033938 TTGG-CTGAAACAAAACCATACGAATCAACAAGTTAGAAGAGTA
1 TTGGTC-GGGACGAAACCATACGTACCAACAAGTTAGAAGGGTA
* * * * ** *
2033981 TTGGTCGGGATGAAACCATATGTACCAACGAGTTAAAAATGTG
1 TTGGTCGGGACGAAACCATACGTACCAACAAGTTAGAAGGGTA
* *
2034024 TTGGTCAGGACGAAACCATACGTACCAACGAGTTAGAAGGGT
1 TTGGTCGGGACGAAACCATACGTACCAACAAGTTAGAAGGGT
2034066 GTTTGCTAGG
Statistics
Matches: 136, Mismatches: 33, Indels: 4
0.79 0.19 0.02
Matches are distributed among these distances:
42 1 0.01
43 134 0.99
44 1 0.01
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.21
Consensus pattern (43 bp):
TTGGTCGGGACGAAACCATACGTACCAACAAGTTAGAAGGGTA
Found at i:2034068 original size:43 final size:43
Alignment explanation
Indices: 2033844--2034164 Score: 227
Period size: 43 Copynumber: 7.4 Consensus size: 43
2033834 GTTAATGAAG
* * *
2033844 GAAAGGTGTTGGTCGGGACGAAACCATATGTACCAACAAGTTA
1 GAAAGGTATTGGTCAGGACGAAACCATACGTACCAACAAGTTA
* * * *
2033887 GAAGGGTATTGGTCGGGACGAAACCATACATACCAATAAGTTA
1 GAAAGGTATTGGTCAGGACGAAACCATACGTACCAACAAGTTA
* * * * * *
2033930 GAAAGATATTGG-CTGAAACAAAACCATACGAATCAACAAGTTA
1 GAAAGGTATTGGTCAG-GACGAAACCATACGTACCAACAAGTTA
* * * *
2033973 G-AAGAGTATTGGTCGGGATGAAACCATATGTACCAACGAGTTA
1 GAAAG-GTATTGGTCAGGACGAAACCATACGTACCAACAAGTTA
* * * *
2034016 AAAATGTGTTGGTCAGGACGAAACCATACGTACCAACGAGTTA
1 GAAAGGTATTGGTCAGGACGAAACCATACGTACCAACAAGTTA
* * * * * *** *
2034059 GAAGGGTGTTTG-CTAGGGCAAAACCATACGTATTGTACGAGTTA
1 GAAAGGTATTGGTC-AGGACGAAACCATACGTA-CCAACAAGTTA
* *** *
2034103 GAAAGGCATTGG-CTAGGACGAAACCATATAAACCAATAAGTTA
1 GAAAGGTATTGGTC-AGGACGAAACCATACGTACCAACAAGTTA
* * *
2034146 GAAAAGTGTTGGTCGGGAC
1 GAAAGGTATTGGTCAGGAC
2034165 AAAATCGTAT
Statistics
Matches: 215, Mismatches: 56, Indels: 14
0.75 0.20 0.05
Matches are distributed among these distances:
42 6 0.03
43 173 0.80
44 36 0.17
ACGTcount: A:0.37, C:0.16, G:0.26, T:0.21
Consensus pattern (43 bp):
GAAAGGTATTGGTCAGGACGAAACCATACGTACCAACAAGTTA
Found at i:2035212 original size:32 final size:33
Alignment explanation
Indices: 2035151--2035212 Score: 92
Period size: 32 Copynumber: 1.9 Consensus size: 33
2035141 TTCAACGATT
*
2035151 TGTATCGATACATAAAGTGTTGTATCGATATAA
1 TGTACCGATACATAAAGTGTTGTATCGATATAA
2035184 TGTACCGATACAT-AAGT-TCTGTATCGATA
1 TGTACCGATACATAAAGTGT-TGTATCGATA
2035213 CAATTTAAGC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 1 0.04
32 14 0.52
33 12 0.44
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.35
Consensus pattern (33 bp):
TGTACCGATACATAAAGTGTTGTATCGATATAA
Found at i:2035254 original size:13 final size:13
Alignment explanation
Indices: 2035236--2035295 Score: 60
Period size: 13 Copynumber: 5.1 Consensus size: 13
2035226 TGCCAAAAAA
2035236 TGTATCGATACAT
1 TGTATCGATACAT
*
2035249 TGTATCGATACAC
1 TGTATCGATACAT
2035262 TG-AT--AT---T
1 TGTATCGATACAT
*
2035269 TGTATCGATACAA
1 TGTATCGATACAT
2035282 TGTATCGATACAT
1 TGTATCGATACAT
2035295 T
1 T
2035296 TGAGTAATGT
Statistics
Matches: 37, Mismatches: 4, Indels: 12
0.70 0.08 0.23
Matches are distributed among these distances:
7 2 0.05
8 2 0.05
10 4 0.11
12 2 0.05
13 27 0.73
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2035273 original size:33 final size:34
Alignment explanation
Indices: 2035234--2035316 Score: 116
Period size: 33 Copynumber: 2.5 Consensus size: 34
2035224 ACTGCCAAAA
2035234 AATGTATCGATACATTGTATCGATACA-CTGA-T
1 AATGTATCGATACATTGTATCGATACATCTGAGT
* * *
2035266 ATTTGTATCGATACAATGTATCGATACATTTGAGT
1 A-ATGTATCGATACATTGTATCGATACATCTGAGT
2035301 AATGTATCGATACATT
1 AATGTATCGATACATT
2035317 ATAAAATGTA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
32 1 0.02
33 24 0.56
34 16 0.37
35 2 0.05
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (34 bp):
AATGTATCGATACATTGTATCGATACATCTGAGT
Found at i:2035326 original size:20 final size:21
Alignment explanation
Indices: 2035280--2035335 Score: 80
Period size: 21 Copynumber: 2.7 Consensus size: 21
2035270 GTATCGATAC
*
2035280 AATGTATCGATACATTTGAGT
1 AATGTATCGATACATTTGAGA
2035301 AATGTATCGATACATTAT-A-A
1 AATGTATCGATACATT-TGAGA
2035321 AATGTATCGATACAT
1 AATGTATCGATACAT
2035336 GCAGGCAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
20 15 0.45
21 17 0.52
22 1 0.03
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (21 bp):
AATGTATCGATACATTTGAGA
Found at i:2042547 original size:17 final size:16
Alignment explanation
Indices: 2042526--2042588 Score: 69
Period size: 16 Copynumber: 4.1 Consensus size: 16
2042516 GTTCTTTTCC
2042526 AAAAAAAGAAACAAAA
1 AAAAAAAGAAACAAAA
* *
2042542 CAAAAAAG-GA-AAAA
1 AAAAAAAGAAACAAAA
*
2042556 AAAAGAAGAAACAAAA
1 AAAAAAAGAAACAAAA
*
2042572 AAAAAAACAAA-AAAA
1 AAAAAAAGAAACAAAA
2042587 AA
1 AA
2042589 CGAAAAACCC
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
14 10 0.26
15 8 0.21
16 20 0.53
ACGTcount: A:0.86, C:0.06, G:0.08, T:0.00
Consensus pattern (16 bp):
AAAAAAAGAAACAAAA
Found at i:2042567 original size:30 final size:29
Alignment explanation
Indices: 2042526--2042596 Score: 92
Period size: 29 Copynumber: 2.4 Consensus size: 29
2042516 GTTCTTTTCC
**
2042526 AAAAA-AAGAAACAAAACAAAAAAGGAAAA
1 AAAAAGAAGAAACAAAA-AAAAAAACAAAA
2042555 AAAAAGAAGAAACAAAAAAAAAAACAAAA
1 AAAAAGAAGAAACAAAAAAAAAAACAAAA
2042584 AAAAACGAA-AAAC
1 AAAAA-GAAGAAAC
2042597 CCCTTTTCAC
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
29 24 0.63
30 14 0.37
ACGTcount: A:0.83, C:0.08, G:0.08, T:0.00
Consensus pattern (29 bp):
AAAAAGAAGAAACAAAAAAAAAAACAAAA
Found at i:2042579 original size:12 final size:12
Alignment explanation
Indices: 2042538--2042588 Score: 59
Period size: 12 Copynumber: 4.2 Consensus size: 12
2042528 AAAAAGAAAC
2042538 AAAACAAAAAAGGA
1 AAAACAAAAAA--A
*
2042552 AAAA-AAAAGAA
1 AAAACAAAAAAA
*
2042563 GAAACAAAAAAA
1 AAAACAAAAAAA
2042575 AAAACAAAAAAA
1 AAAACAAAAAAA
2042587 AA
1 AA
2042589 CGAAAAACCC
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
11 4 0.12
12 19 0.59
13 5 0.16
14 4 0.12
ACGTcount: A:0.86, C:0.06, G:0.08, T:0.00
Consensus pattern (12 bp):
AAAACAAAAAAA
Found at i:2042594 original size:16 final size:14
Alignment explanation
Indices: 2042526--2042595 Score: 70
Period size: 14 Copynumber: 4.9 Consensus size: 14
2042516 GTTCTTTTCC
2042526 AAAAAAAGAAACAAA
1 AAAAAAAGAAA-AAA
*
2042541 ACAAAAAAGGAAAAA
1 A-AAAAAAGAAAAAA
* *
2042556 AAAAGAAGAAACAA
1 AAAAAAAGAAAAAA
*
2042570 AAAAAAA-AACAAA
1 AAAAAAAGAAAAAA
*
2042583 AAAAAACGAAAAA
1 AAAAAAAGAAAAA
2042596 CCCCTTTTCA
Statistics
Matches: 44, Mismatches: 9, Indels: 5
0.76 0.16 0.09
Matches are distributed among these distances:
13 10 0.23
14 20 0.45
15 5 0.11
16 9 0.20
ACGTcount: A:0.84, C:0.07, G:0.09, T:0.00
Consensus pattern (14 bp):
AAAAAAAGAAAAAA
Found at i:2042595 original size:12 final size:12
Alignment explanation
Indices: 2042526--2042595 Score: 59
Period size: 13 Copynumber: 5.4 Consensus size: 12
2042516 GTTCTTTTCC
* *
2042526 AAAAAAAGAAAC
1 AAAAAAAAAAAG
*
2042538 AAAACAAAAAAGG
1 AAAA-AAAAAAAG
2042551 AAAAAAAAAGAAG
1 AAAAAAAAA-AAG
*
2042564 AAACAAAAAAAAA
1 AAA-AAAAAAAAG
2042577 AACAAAAAAAAACG
1 AA-AAAAAAAAA-G
2042591 AAAAA
1 AAAAA
2042596 CCCCTTTTCA
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
12 9 0.19
13 29 0.62
14 9 0.19
ACGTcount: A:0.84, C:0.07, G:0.09, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAG
Found at i:2043573 original size:31 final size:30
Alignment explanation
Indices: 2043533--2044257 Score: 260
Period size: 32 Copynumber: 23.1 Consensus size: 30
2043523 TTCAAATACC
* *
2043533 TTCTTAAAGTCCACGACTCAGTGGCAATCTC
1 TTCTCAAAGTCCACGACTCAGTGGC-ATCTT
2043564 TTCTCAAAGTCCACGACTCAGTGGCATCCTT
1 TTCTCAAAGTCCACGACTCAGTGGCAT-CTT
2043595 TTCTTCAAAGTCCACGACTCAGTGGCATCTTT
1 TTC-TCAAAGTCCACGACTCAGTGGCATC-TT
*
2043627 TGTCTCAAAGTCCACGACTTAGTGGCATCTTT
1 T-TCTCAAAGTCCACGACTCAGTGGCATC-TT
* * *
2043659 TTCTACAAAGCCCACAACTCCGTGGCACTCTT
1 TTCT-CAAAGTCCACGACTCAGTGGCA-TCTT
** * * * *
2043691 TTCCTTTTAAGTCCACAACTCTGTGGCACCCT
1 TT-C-TCAAAGTCCACGACTCAGTGGCATCTT
* * *
2043723 TT-T--AAGCCCACAACTCAGTGGCATATCT
1 TTCTCAAAGTCCACGACTCAGTGGCATCT-T
*
2043751 TTC-CAAAGTCCACGACTTAGTGGCATCTT
1 TTCTCAAAGTCCACGACTCAGTGGCATCTT
* * * *
2043780 TTCTCTAAAGCCCACAATTCCGTGGCACTCTTT
1 TTCTC-AAAGTCCACGACTCAGTGGCA-TC-TT
** * * *
2043813 TTCCTTTTAAG-CTCATGACTCCGTGGCACCTTT
1 TT-C-TCAAAGTC-CACGACTCAGTGGCATC-TT
* * * * *
2043846 TTCTTTTCTAAGTCCACAACTCCGTGGCACCCT
1 TTC---TCAAAGTCCACGACTCAGTGGCATCTT
* *
2043879 TT-T--AAGCCCACAACTTC-GTGGCACTCTTT
1 TTCTCAAAGTCCACGAC-TCAGTGGCA-TC-TT
* * * * *
2043908 TTCCTTCTAAGTCCACAACTCTGTGGCACCCT
1 TT-C-TCAAAGTCCACGACTCAGTGGCATCTT
* * *
2043940 TT-T-AAAGCCCACAACTCCGTGGCACTCTT
1 TTCTCAAAGTCCACGACTCAGTGGCA-TCTT
* * * * *
2043969 TTCCCCTTTTAAAGTCCACAACCCCGTGGCACCTT
1 TT---C--TCAAAGTCCACGACTCAGTGGCATCTT
* * * *
2044004 GTTCCTTCTAAGTCCACGACTCTGTCGCACCTT
1 -TT-C-TCAAAGTCCACGACTCAGTGGCATCTT
* ** * *
2044037 CTTTTCAAAACCCACAACTCCGTGGCACTCTTT
1 -TTCTCAAAGTCCACGACTCAGTGGCA-TC-TT
*
2044070 TTCCTTCTAAGTCCACGACAT-AGTGGCATCATT
1 TT-C-TCAAAGTCCACGAC-TCAGTGGCATC-TT
* * *
2044103 TTCTGCAAAGCCCACAACTCCGTGGCACTCTT
1 TTCT-CAAAGTCCACGACTCAGTGGCA-TCTT
** * * *
2044135 TTCCTTTTAAGTCCACAACTCTA-TGGCACCCT
1 TT-C-TCAAAGTCCACGACTC-AGTGGCATCTT
* *
2044167 TT-T--AAGCCCACAACTCAGTGGCATCTCT
1 TTCTCAAAGTCCACGACTCAGTGGCATCT-T
2044195 TTC-CAAAGTCCACGACTCAGTGGCATCTT
1 TTCTCAAAGTCCACGACTCAGTGGCATCTT
* * * *
2044224 TTCTCTAAAGCCCACAATTCCGTGGCACTCTT
1 TTCTC-AAAGTCCACGACTCAGTGGCA-TCTT
2044256 TT
1 TT
2044258 TCCTTTTAAG
Statistics
Matches: 543, Mismatches: 92, Indels: 117
0.72 0.12 0.16
Matches are distributed among these distances:
26 1 0.00
27 52 0.10
28 27 0.05
29 19 0.03
30 44 0.08
31 85 0.16
32 122 0.22
33 92 0.17
34 73 0.13
35 7 0.01
36 21 0.04
ACGTcount: A:0.22, C:0.33, G:0.14, T:0.31
Consensus pattern (30 bp):
TTCTCAAAGTCCACGACTCAGTGGCATCTT
Found at i:2043651 original size:64 final size:62
Alignment explanation
Indices: 2043533--2044259 Score: 331
Period size: 64 Copynumber: 11.5 Consensus size: 62
2043523 TTCAAATACC
* * * *
2043533 TTCTTAAAGTCCACGACTCAGTGGCAATC-TCTTCTCAAAGTCCACGACTCAGTGGCATCCTT
1 TTCTTAAAGCCCACAACTCAGTGGC-ATCTTTTTCTCAAAGTCCACGACTTAGTGGCATCCTT
* * *
2043595 TTCTTCAAAGTCCACGACTCAGTGGCATCTTTTGTCTCAAAGTCCACGACTTAGTGGCATCTTT
1 TTCTT-AAAGCCCACAACTCAGTGGCATCTTTT-TCTCAAAGTCCACGACTTAGTGGCATCCTT
* * * ** *
2043659 TTCTACAAAGCCCACAACTCCGTGGCACTCTTTTCCTTTTAAGTCCACAACTCT-GTGGCA-CC-
1 TTCT-TAAAGCCCACAACTCAGTGGCA-TCTTTTTC-TCAAAGTCCACGACT-TAGTGGCATCCT
*
2043721 C
62 T
* *
2043722 TT-TT-AAGCCCACAACTCAGTGGCATATCTTTC-CAAAGTCCACGACTTAGTGGCAT-CTT
1 TTCTTAAAGCCCACAACTCAGTGGCATCTTTTTCTCAAAGTCCACGACTTAGTGGCATCCTT
* * ** * **
2043780 TTCTCTAAAGCCCACAATTCCGTGGCACTCTTTTTCCTTTTAAG-CTCATGACTCCGTGGCA-CC
1 TTCT-TAAAGCCCACAACTCAGTGGCA-TCTTTTT-C-TCAAAGTC-CACGACTTAGTGGCATCC
2043843 TTT
61 -TT
* * * ** * * * *
2043846 TTCTTTTCTAAGTCCACAACTCCGTGGCA-CCCTTT-T--AAGCCCACAACTTCGTGGCACTCTT
1 TTC--TT-AAAGCCCACAACTCAGTGGCATCTTTTTCTCAAAGTCCACGACTTAGTGGCA-TCCT
2043907 T
62 T
* * * ** * * **
2043908 TTCCTTCTAAGTCCACAACTCTGTGGCA-CCCTTT-T-AAAGCCCACAACTCCGTGGCA-CTCTT
1 TT-CTT-AAAGCCCACAACTCAGTGGCATCTTTTTCTCAAAGTCCACGACTTAGTGGCATC-CTT
* * * * * * *
2043969 TTCCCCTTTTAAAGTCCACAACCCCGTGGCACCTTGTTCCTTCTAAGTCCACGACTCT-GTCGCA
1 TT---C--TTAAAGCCCACAACTCAGTGGCATCTT-TTTC-TCAAAGTCCACGACT-TAGTGGCA
2044033 -CCTT
58 TCCTT
* * * * *
2044037 CTT-TTCAAAACCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACGACATAGTGGCATCA
1 -TTCTT-AAAGCCCACAACTCAGTGGCA-TCTTTTT-C-TCAAAGTCCACGACTTAGTGGCATCC
2044101 TT
61 TT
* * * ** *
2044103 TTCTGCAAAGCCCACAACTCCGTGGCACTCTTTTCCTTTTAAGTCCACAACTCTA-TGGCA-CC-
1 TTCT-TAAAGCCCACAACTCAGTGGCA-TCTTTTTC-TCAAAGTCCACGACT-TAGTGGCATCCT
*
2044165 C
62 T
* *
2044166 TT-TT-AAGCCCACAACTCAGTGGCATCTCTTTC-CAAAGTCCACGACTCAGTGGCAT-CTT
1 TTCTTAAAGCCCACAACTCAGTGGCATCTTTTTCTCAAAGTCCACGACTTAGTGGCATCCTT
* *
2044224 TTCTCTAAAGCCCACAATTCCGTGGCACTCTTTTTC
1 TTCT-TAAAGCCCACAACTCAGTGGCA-TCTTTTTC
2044260 CTTTTAAGCC
Statistics
Matches: 528, Mismatches: 82, Indels: 110
0.73 0.11 0.15
Matches are distributed among these distances:
56 2 0.00
57 35 0.07
58 4 0.01
59 13 0.02
60 41 0.08
61 85 0.16
62 46 0.09
63 34 0.06
64 93 0.18
65 88 0.17
66 45 0.09
67 1 0.00
68 23 0.04
69 18 0.03
ACGTcount: A:0.22, C:0.33, G:0.14, T:0.31
Consensus pattern (62 bp):
TTCTTAAAGCCCACAACTCAGTGGCATCTTTTTCTCAAAGTCCACGACTTAGTGGCATCCTT
Found at i:2043733 original size:27 final size:27
Alignment explanation
Indices: 2043693--2043745 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
2043683 GCACTCTTTT
* *
2043693 CCTTTTAAGTCCACAACTCTGTGGCAC
1 CCTTTTAAGCCCACAACTCAGTGGCAC
2043720 CCTTTTAAGCCCACAACTCAGTGGCA
1 CCTTTTAAGCCCACAACTCAGTGGCA
2043746 TATCTTTCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.25, C:0.34, G:0.15, T:0.26
Consensus pattern (27 bp):
CCTTTTAAGCCCACAACTCAGTGGCAC
Found at i:2043841 original size:34 final size:34
Alignment explanation
Indices: 2043791--2044646 Score: 493
Period size: 34 Copynumber: 26.6 Consensus size: 34
2043781 TCTCTAAAGC
*
2043791 CCACAATTCCGTGGCACTCTTTTTCCTTT-TAAG-
1 CCACAACTCCGTGGCAC-CTTTTTCCTTTCTAAGT
** *
2043824 CTCATGACTCCGTGGCACCTTTTTCTTTTCTAAGT
1 C-CACAACTCCGTGGCACCTTTTTCCTTTCTAAGT
*
2043859 CCACAACTCCGTGGCA-C-----CCTTT-TAAGC
1 CCACAACTCCGTGGCACCTTTTTCCTTTCTAAGT
*
2043886 CCACAACTTCGTGGCACTCTTTTTCC-TTCTAAGT
1 CCACAACTCCGTGGCAC-CTTTTTCCTTTCTAAGT
* *
2043920 CCACAACTCTGTGGCA-C-----CCTTT-TAAAGC
1 CCACAACTCCGTGGCACCTTTTTCCTTTCT-AAGT
*
2043948 CCACAACTCCGTGGCACTCTTTTCCCCTTT-TAAAGT
1 CCACAACTCCGTGGCAC-CTTTT-TCCTTTCT-AAGT
* *
2043984 CCACAACCCCGTGGCACCTTGTTCC-TTCTAAGT
1 CCACAACTCCGTGGCACCTTTTTCCTTTCTAAGT
* * * * * **
2044017 CCACGACTCTGTCGCACC---TTCTTTTCAAAAC
1 CCACAACTCCGTGGCACCTTTTTCCTTTCTAAGT
2044048 CCACAACTCCGTGGCACTCTTTTTCC-TTCTAAGT
1 CCACAACTCCGTGGCAC-CTTTTTCCTTTCTAAGT
* * * * * * *
2044082 CCACGACAT-AGTGGCATCATTTT-C-TGCAAAGC
1 CCACAAC-TCCGTGGCACCTTTTTCCTTTCTAAGT
2044114 CCACAACTCCGTGGCA-CTCTTTTCCTTT-TAAGT
1 CCACAACTCCGTGGCACCT-TTTTCCTTTCTAAGT
** *
2044147 CCACAACTCTATGGCA-C-----CCTTT-TAAGC
1 CCACAACTCCGTGGCACCTTTTTCCTTTCTAAGT
* * * *
2044174 CCACAACTCAGTGGCATCTCTTT-C---CAAAGT
1 CCACAACTCCGTGGCACCTTTTTCCTTTCTAAGT
* * * *
2044204 CCACGACTCAGTGGCATC-TTTT-C--TCTAAAGC
1 CCACAACTCCGTGGCACCTTTTTCCTTTCT-AAGT
* *
2044235 CCACAATTCCGTGGCACTCTTTTTCCTTT-TAAGC
1 CCACAACTCCGTGGCAC-CTTTTTCCTTTCTAAGT
* *
2044269 CCACGACTCCGTGGCACCTTTTTCTTTTCTAAGT
1 CCACAACTCCGTGGCACCTTTTTCCTTTCTAAGT
*
2044303 CCACAACTCCGTGGCA-C-----CCTTT-TAAGC
1 CCACAACTCCGTGGCACCTTTTTCCTTTCTAAGT
2044330 CCACAACTCCGTGGCACTCTTTTTCC-TTCTAAGT
1 CCACAACTCCGTGGCAC-CTTTTTCCTTTCTAAGT
* *
2044364 CCACAACTCTGTGGCA-C-----CCTTT-TAAAGC
1 CCACAACTCCGTGGCACCTTTTTCCTTTCT-AAGT
*
2044392 CCACAACTCCGTGGCACTCTTTTCCCCTTT-TAAAGT
1 CCACAACTCCGTGGCAC-CTTTT-TCCTTTCT-AAGT
* *
2044428 CCACAACCCCGTGGCACCTTGTTCC-TTCTAAGT
1 CCACAACTCCGTGGCACCTTTTTCCTTTCTAAGT
* * * * *
2044461 CCACGACTTCGTGGCACC---TTCTTTTCAAAGC
1 CCACAACTCCGTGGCACCTTTTTCCTTTCTAAGT
2044492 CCACAACTCCGTGGCACTCTTTTTCC-TTCTAAGT
1 CCACAACTCCGTGGCAC-CTTTTTCCTTTCTAAGT
* * * * *
2044526 CCACAATTCTGTGGCACC---TTCTTTTCAAAGC
1 CCACAACTCCGTGGCACCTTTTTCCTTTCTAAGT
2044557 CCACAACTCCGTGGCACTCTTTTTCCCTTT-TAAAGT
1 CCACAACTCCGTGGCAC-CTTTTT-CCTTTCT-AAGT
* *
2044593 CCACAACTTCGTGGCACCTTGTTCCTTT-TAAGT
1 CCACAACTCCGTGGCACCTTTTTCCTTTCTAAGT
* *
2044626 CCACAACTTCGTGGCATCTTT
1 CCACAACTCCGTGGCACCTTT
2044647 CACCCTTCTC
Statistics
Matches: 644, Mismatches: 101, Indels: 156
0.71 0.11 0.17
Matches are distributed among these distances:
27 68 0.11
28 49 0.08
29 6 0.01
30 32 0.05
31 79 0.12
32 29 0.05
33 120 0.19
34 161 0.25
35 24 0.04
36 76 0.12
ACGTcount: A:0.20, C:0.34, G:0.13, T:0.32
Consensus pattern (34 bp):
CCACAACTCCGTGGCACCTTTTTCCTTTCTAAGT
Found at i:2043889 original size:27 final size:27
Alignment explanation
Indices: 2043854--2043970 Score: 108
Period size: 27 Copynumber: 4.0 Consensus size: 27
2043844 TTTTCTTTTC
*
2043854 TAAGTCCACAACTCCGTGGCACCCTTT
1 TAAGCCCACAACTCCGTGGCACCCTTT
* *
2043881 TAAGCCCACAACTTCGTGGCACTCTTTTTCCTTC
1 TAAGCCCACAACTCCGTGGCA--C-----CCTTT
* *
2043915 TAAGTCCACAACTCTGTGGCACCCTTT
1 TAAGCCCACAACTCCGTGGCACCCTTT
*
2043942 TAAAGCCCACAACTCCGTGGCACTCTTT
1 T-AAGCCCACAACTCCGTGGCACCCTTT
2043970 T
1 T
2043971 CCCCTTTTAA
Statistics
Matches: 72, Mismatches: 10, Indels: 15
0.74 0.10 0.15
Matches are distributed among these distances:
27 24 0.33
28 24 0.33
29 1 0.01
32 1 0.01
34 22 0.31
ACGTcount: A:0.21, C:0.35, G:0.14, T:0.30
Consensus pattern (27 bp):
TAAGCCCACAACTCCGTGGCACCCTTT
Found at i:2043899 original size:61 final size:63
Alignment explanation
Indices: 2043834--2044644 Score: 388
Period size: 65 Copynumber: 12.7 Consensus size: 63
2043824 CTCATGACTC
*
2043834 CGTGGCACCTTTTTCTTTTCTAAGTCCACAACTCCGTGGCA-C-CCTTTTAAGCCCACAACTT
1 CGTGGCACCTTTTTCTTTTCTAAGTCCACAACTCCGTGGCATCTCCTTTTAAGTCCACAACTT
* * * *
2043895 CGTGGCACTCTTTTTC-CTTCTAAGTCCACAACTCTGTGGCA-C-CCTTTTAAAGCCCACAACTC
1 CGTGGCAC-CTTTTTCTTTTCTAAGTCCACAACTCCGTGGCATCTCCTTTT-AAGTCCACAACTT
* * * * *
2043957 CGTGGCACTCTTTTCCCCTTTT-AAAGTCCACAACCCCGTGGCACCTTGTTCCTTCTAAGTCCAC
1 CGTGGCAC-CTTTT--TCTTTTCTAAGTCCACAACTCCGTGGCA---T-CTCCTTTTAAGTCCAC
*
2044021 GAC-T
59 AACTT
* * ** * *
2044025 CTGTCGCACC---TTCTTTTCAAAACCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACG
1 C-GTGGCACCTTTTTCTTTTCTAAGTCCACAACTCCGTGGCA-TC----TCCTTTTAAGTCCACA
*
2044087 ACAT
60 ACTT
* * * * * *
2044091 AGTGGCATCATTTTC--TGCAAAGCCCACAACTCCGTGGCACTCTTTTCCTTTTAAGTCCACAAC
1 CGTGGCACCTTTTTCTTTTCTAAGTCCACAACTCCGTGGCA-TC---TCCTTTTAAGTCCACAAC
2044154 -T
62 TT
* * * * *
2044155 CTATGGCACC-----C-TTT-TAAGCCCACAACTCAGTGGCATCT-CTTTCCAAAGTCCACGAC-
1 C-GTGGCACCTTTTTCTTTTCTAAGTCCACAACTCCGTGGCATCTCCTTT--TAAGTCCACAACT
2044211 T
63 T
* * * *
2044212 CAGTGGCATC-TTTTC---TCTAAAGCCCACAATTCCGTGGCACTCTTTTTCCTTTTAAGCCCAC
1 C-GTGGCACCTTTTTCTTTTCT-AAGTCCACAACTCCGTGGCA-TC----TCCTTTTAAGTCCAC
* *
2044273 GACTC
59 AACTT
* *
2044278 CGTGGCACCTTTTTCTTTTCTAAGTCCACAACTCCGTGGCA-C-CCTTTTAAGCCCACAACTC
1 CGTGGCACCTTTTTCTTTTCTAAGTCCACAACTCCGTGGCATCTCCTTTTAAGTCCACAACTT
* * * *
2044339 CGTGGCACTCTTTTTC-CTTCTAAGTCCACAACTCTGTGGCA-C-CCTTTTAAAGCCCACAACTC
1 CGTGGCAC-CTTTTTCTTTTCTAAGTCCACAACTCCGTGGCATCTCCTTTT-AAGTCCACAACTT
* * * * *
2044401 CGTGGCACTCTTTTCCCCTTTT-AAAGTCCACAACCCCGTGGCACCTTGTTCCTTCTAAGTCCAC
1 CGTGGCAC-CTTTT--TCTTTTCTAAGTCCACAACTCCGTGGCA---T-CTCCTTTTAAGTCCAC
*
2044465 GACTT
59 AACTT
* * *
2044470 CGTGGCACC---TTCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAA
1 CGTGGCACCTTTTTCTTTTCTAAGTCCACAACTCCGTGGCA-TC----TCCTTTTAAGTCCACAA
2044532 -TT
61 CTT
* *
2044534 CTGTGGCACC---TTCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGTCCA
1 C-GTGGCACCTTTTTCTTTTCTAAGTCCACAACTCCGTGGCA-TC----T-CCTTTT-AAGTCCA
2044596 CAACTT
58 CAACTT
* * *
2044602 CGTGGCACCTTGTTCCTTT-TAAGTCCACAACTTCGTGGCATCT
1 CGTGGCACCTTTTTCTTTTCTAAGTCCACAACTCCGTGGCATCT
2044645 TTCACCCTTC
Statistics
Matches: 615, Mismatches: 70, Indels: 127
0.76 0.09 0.16
Matches are distributed among these distances:
55 4 0.01
56 1 0.00
57 18 0.03
59 3 0.00
60 21 0.03
61 114 0.19
62 71 0.12
63 10 0.02
64 80 0.13
65 133 0.22
66 39 0.06
67 22 0.04
68 29 0.05
69 54 0.09
70 16 0.03
ACGTcount: A:0.20, C:0.35, G:0.13, T:0.32
Consensus pattern (63 bp):
CGTGGCACCTTTTTCTTTTCTAAGTCCACAACTCCGTGGCATCTCCTTTTAAGTCCACAACTT
Found at i:2044086 original size:65 final size:65
Alignment explanation
Indices: 2043974--2044612 Score: 494
Period size: 65 Copynumber: 10.0 Consensus size: 65
2043964 CTCTTTTCCC
* * * *
2043974 CTTTT-AAAGTCCACAACCCCGTGGCAC-CTTGTTCCTTCTAAGTCCACGACTCTGTCGCACCTT
1 CTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACGACTCTGTGGCACCTT
* * *
2044037 CTTTTCAAAACCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACGACAT-AGTGGCATCA
1 CTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACGAC-TCTGTGGCA-CC
2044101 TT
64 TT
* * * *
2044103 -TTCTGCAAAGCCCACAACTCCGTGGCACTC-TTTTCCTTTTAAGTCCACAACTCTATGGCACC-
1 CTT-TTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACGACTCTGTGGCACCT
2044165 -
65 T
* * * * *
2044165 CTTTT--AAGCCCACAACTCAGTGGCA-TCTCTTT-C--CAAAGTCCACGACTCAGTGGCATCTT
1 CTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACGACTCTGTGGCACCTT
* * * * *
2044224 -TTCTCTAAAGCCCACAATTCCGTGGCACTCTTTTTCCTTTTAAGCCCACGACTCCGTGGCACCT
1 CTTTTC-AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACGACTCTGTGGCACC-
2044288 TTTT
64 --TT
* * * * * *
2044292 CTTTTCTAAGTCCACAACTCCGTGGCA--C-----CCTTTTAAGCCCACAACTCCGTGGCACTCT
1 CTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACGACTCTGTGGCAC-CT
2044350 T
65 T
* * * * * * * * *
2044351 TTTCCTTCTAAGTCCACAACTCTGTGGCAC-C--CTT--TT-AAAGCCCACAACTCCGTGGCACT
1 CTT--TTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACGACTCTGTGGCAC-
2044410 CTTTT
63 C--TT
* * *
2044415 CCCCTTTT-AAAGTCCACAACCCCGTGGCAC-CTTGTTCCTTCTAAGTCCACGACT-TCGTGGCA
1 ---CTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACGACTCT-GTGGCA
2044477 CCTT
62 CCTT
* *
2044481 CTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAATTCTGTGGCACCTT
1 CTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACGACTCTGTGGCACCTT
* *
2044546 CTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGTCCACAACT-TCGTGGCAC
1 CTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTT-CCTTCT-AAGTCCACGACTCT-GTGGCAC
2044610 CTT
63 CTT
2044613 GTTCCTTTTA
Statistics
Matches: 475, Mismatches: 56, Indels: 86
0.77 0.09 0.14
Matches are distributed among these distances:
57 18 0.04
58 3 0.01
59 7 0.01
60 22 0.05
61 67 0.14
62 32 0.07
63 15 0.03
64 63 0.13
65 140 0.29
66 41 0.09
67 23 0.05
68 23 0.05
69 21 0.04
ACGTcount: A:0.21, C:0.35, G:0.13, T:0.31
Consensus pattern (65 bp):
CTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACGACTCTGTGGCACCTT
Found at i:2044463 original size:444 final size:444
Alignment explanation
Indices: 2043570--2044600 Score: 1738
Period size: 444 Copynumber: 2.3 Consensus size: 444
2043560 TCTCTTCTCA
* * * *
2043570 AAGTCCACGACTCAGTGGCATCCTT-TTCTTCAAAGTCCACGACTCAGTGGCA-TCTTTTGT-C-
1 AAGTCCACGACTCTGTGGCA-CCTTCTT-TTCAAAGCCCACAACTCCGTGGCACTCTTTT-TCCT
* * *
2043631 TCAAAGTCCACGACTTAGTGGCATCTTTTTCTACAAAGCCCACAACTCCGTGGCACTCTTTTCCT
63 TCTAAGTCCACGACATAGTGGCATCATTTTCTACAAAGCCCACAACTCCGTGGCACTCTTTTCCT
*
2043696 TTTAAGTCCACAACTCTGTGGCACCCTTTTAAGCCCACAACTCAGTGGCATATCTTTCCAAAGTC
128 TTTAAGTCCACAACTCTATGGCACCCTTTTAAGCCCACAACTCAGTGGCATATCTTTCCAAAGTC
* *
2043761 CACGACTTAGTGGCATCTTTTCTCTAAAGCCCACAATTCCGTGGCACTCTTTTTCCTTTTAAGCT
193 CACGACTCAGTGGCATCTTTTCTCTAAAGCCCACAATTCCGTGGCACTCTTTTTCCTTTTAAGCC
*
2043826 CATGACTCCGTGGCACCTTTTTCTTTTCTAAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACA
258 CACGACTCCGTGGCACCTTTTTCTTTTCTAAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACA
*
2043891 ACTTCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCTGTGGCACCCTTTTAAAGCCCACAACT
323 ACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCTGTGGCACCCTTTTAAAGCCCACAACT
2043956 CCGTGGCACTCTTTTCCCCTTTTAAAGTCCACAACCCCGTGGCACCTTGTTCCTTCT
388 CCGTGGCACTCTTTTCCCCTTTTAAAGTCCACAACCCCGTGGCACCTTGTTCCTTCT
* *
2044013 AAGTCCACGACTCTGTCGCACCTTCTTTTCAAAACCCACAACTCCGTGGCACTCTTTTTCCTTCT
1 AAGTCCACGACTCTGTGGCACCTTCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCT
*
2044078 AAGTCCACGACATAGTGGCATCATTTTCTGCAAAGCCCACAACTCCGTGGCACTCTTTTCCTTTT
66 AAGTCCACGACATAGTGGCATCATTTTCTACAAAGCCCACAACTCCGTGGCACTCTTTTCCTTTT
*
2044143 AAGTCCACAACTCTATGGCACCCTTTTAAGCCCACAACTCAGTGGCATCTCTTTCCAAAGTCCAC
131 AAGTCCACAACTCTATGGCACCCTTTTAAGCCCACAACTCAGTGGCATATCTTTCCAAAGTCCAC
2044208 GACTCAGTGGCATCTTTTCTCTAAAGCCCACAATTCCGTGGCACTCTTTTTCCTTTTAAGCCCAC
196 GACTCAGTGGCATCTTTTCTCTAAAGCCCACAATTCCGTGGCACTCTTTTTCCTTTTAAGCCCAC
2044273 GACTCCGTGGCACCTTTTTCTTTTCTAAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACT
261 GACTCCGTGGCACCTTTTTCTTTTCTAAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACT
2044338 CCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCTGTGGCACCCTTTTAAAGCCCACAACTCCG
326 CCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCTGTGGCACCCTTTTAAAGCCCACAACTCCG
2044403 TGGCACTCTTTTCCCCTTTTAAAGTCCACAACCCCGTGGCACCTTGTTCCTTCT
391 TGGCACTCTTTTCCCCTTTTAAAGTCCACAACCCCGTGGCACCTTGTTCCTTCT
2044457 AAGTCCACGACT-TCGTGGCACCTTCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTC
1 AAGTCCACGACTCT-GTGGCACCTTCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTC
* * *
2044521 TAAGTCCAC-A-ATTCTGTGGCA-CCTTCTT-TTCAAAGCCCACAACTCCGTGGCACTCTTTTTC
65 TAAGTCCACGACA-T-AGTGGCATCATT-TTCTACAAAGCCCACAACTCCGTGGCACTC-TTTT-
2044582 CCTTTTAAAGTCCACAACT
125 CCTTTT-AAGTCCACAACT
2044601 TCGTGGCACC
Statistics
Matches: 556, Mismatches: 21, Indels: 19
0.93 0.04 0.03
Matches are distributed among these distances:
442 26 0.05
443 59 0.11
444 453 0.81
445 6 0.01
446 12 0.02
ACGTcount: A:0.21, C:0.34, G:0.14, T:0.32
Consensus pattern (444 bp):
AAGTCCACGACTCTGTGGCACCTTCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCT
AAGTCCACGACATAGTGGCATCATTTTCTACAAAGCCCACAACTCCGTGGCACTCTTTTCCTTTT
AAGTCCACAACTCTATGGCACCCTTTTAAGCCCACAACTCAGTGGCATATCTTTCCAAAGTCCAC
GACTCAGTGGCATCTTTTCTCTAAAGCCCACAATTCCGTGGCACTCTTTTTCCTTTTAAGCCCAC
GACTCCGTGGCACCTTTTTCTTTTCTAAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACT
CCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCTGTGGCACCCTTTTAAAGCCCACAACTCCG
TGGCACTCTTTTCCCCTTTTAAAGTCCACAACCCCGTGGCACCTTGTTCCTTCT
Found at i:2044609 original size:165 final size:161
Alignment explanation
Indices: 2044109--2044641 Score: 712
Period size: 165 Copynumber: 3.3 Consensus size: 161
2044099 CATTTTCTGC
* *
2044109 AAAGCCCACAACTCCGTGGCACTCTT-TTCCTTTTAAGTCCACAAC-TCTATGGCACCCTTTTAA
1 AAAGCCCACAACTCCGTGGCAC-CTTGTTCCTTCTAAGTCCACAACTTC-GTGGCACCCTTTTAA
* * * * * * *
2044172 GCCCACAACTCAGTGGCA-TCTCTTT-C--CAAAGTCCACGACTCAGTGGCATCTT-TTCTCTAA
64 GCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCTGTGGCACCTTCTTTTC-AA
*
2044232 AGCCCACAATTCCGTGGCACTCTTTTT-CCTTTT
128 AGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
* * * *
2044265 -AAGCCCACGACTCCGTGGCACCTTTTTCTTTTCTAAGTCCACAACTCCGTGGCACCCTTTTAAG
1 AAAGCCCACAACTCCGTGGCACCTTGTTC-CTTCTAAGTCCACAACTTCGTGGCACCCTTTTAAG
2044329 CCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCTGTGGCACC--CTTTT-AAAG
65 CCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCTGTGGCACCTTCTTTTCAAAG
*
2044391 CCCACAACTCCGTGGCACTCTTTTCCCCTTTT
130 CCCACAACTCCGTGGCACTCTTTTTCCCTTTT
* * *
2044423 AAAGTCCACAACCCCGTGGCACCTTGTTCCTTCTAAGTCCACGACTTCGTGGCACCTTCTTTTCA
1 AAAGCCCACAACTCCGTGGCACCTTGTTCCTTCTAAGTCCACAACTTCGTGGCACC--CTTTT--
*
2044488 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAATTCTGTGGCACCTTCTTTTCA
62 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCTGTGGCACCTTCTTTTCA
2044553 AAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
127 AAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
* * *
2044588 AAAGTCCACAACTTCGTGGCACCTTGTTCCTTTTAAGTCCACAACTTCGTGGCA
1 AAAGCCCACAACTCCGTGGCACCTTGTTCCTTCTAAGTCCACAACTTCGTGGCA
2044642 TCTTTCACCC
Statistics
Matches: 333, Mismatches: 27, Indels: 25
0.86 0.07 0.06
Matches are distributed among these distances:
154 3 0.01
155 23 0.07
156 45 0.14
157 34 0.10
158 31 0.09
159 27 0.08
160 25 0.08
162 55 0.17
164 5 0.02
165 85 0.26
ACGTcount: A:0.21, C:0.35, G:0.14, T:0.31
Consensus pattern (161 bp):
AAAGCCCACAACTCCGTGGCACCTTGTTCCTTCTAAGTCCACAACTTCGTGGCACCCTTTTAAGC
CCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCTGTGGCACCTTCTTTTCAAAGC
CCACAACTCCGTGGCACTCTTTTTCCCTTTT
Found at i:2044630 original size:100 final size:96
Alignment explanation
Indices: 2044109--2044641 Score: 367
Period size: 95 Copynumber: 5.6 Consensus size: 96
2044099 CATTTTCTGC
* *
2044109 AAAGCCCACAACTCCGTGGCACTCTTTTCCTTTTAAGTCCACAACTCTATGGCACC--CTT-TT-
1 AAAGCCCACAACTCCGTGGCACTCTTTTCCTTTTAAGTCCACAATTC-GTGGCACCTTCTTCTTC
* * *
2044170 -AAGCCCACAACTCAGTGGCA---TCTCTTTCC
65 AAAGCCCACAACTCCGTGGCACCTTCCCTTT-T
* * * * * * *
2044199 AAAGTCCACGACTCAGTGGCA-TCTTTT-CTCTAAAGCCCACAATTCCGTGGCACTCTTTTTCCT
1 AAAGCCCACAACTCCGTGGCACTCTTTTCCTTTTAAGTCCACAATT-CGTGGCAC-CTTCTT-CT
** * **
2044262 TTTAAGCCCACGACTCCGTGGCACCTTTTTCTTTT
63 TCAAAGCCCACAACTCCGTGGCACC-TTCCCTTTT
* * * * *
2044297 CTAAGTCCACAACTCCGTGGCA--C----CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCC
1 -AAAGCCCACAACTCCGTGGCACTCTTTTCCTTTTAAGTCCACAA-TTCGTGGCAC-CTTCTT-C
* * *
2044356 TTCTAAGTCCACAACTCTGTGGCA----CCCTTTT
62 TTCAAAGCCCACAACTCCGTGGCACCTTCCCTTTT
** *
2044387 AAAGCCCACAACTCCGTGGCACTCTTTTCCCCTTTTAAAGTCCACAACCCCGTGGCACCTTGTTC
1 AAAGCCCACAACTCCGTGGCACTCTTTT--CCTTTT-AAGTCCACAA-TTCGTGGCACCTTCTT-
* * * *
2044452 CTTCTAAGTCCACGACTTCGTGGCACCTT--CTTTT
61 CTTCAAAGCCCACAACTCCGTGGCACCTTCCCTTTT
*
2044486 CAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAATTCTGTGGCACCTTCTT-T
1 -AAAGCCCACAACTCCGTGGCACTC-TTTTCCTTTTAAGTCCACAATTC-GTGGCACCTTCTTCT
2044550 TCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
63 TCAAAGCCCACAACTCCGTGGCAC-C---TTCCCTTTT
* *
2044588 AAAGTCCACAACTTCGTGGCAC-CTTGTTCCTTTTAAGTCCACAACTTCGTGGCA
1 AAAGCCCACAACTCCGTGGCACTCTT-TTCCTTTTAAGTCCACAA-TTCGTGGCA
2044642 TCTTTCACCC
Statistics
Matches: 360, Mismatches: 44, Indels: 68
0.76 0.09 0.14
Matches are distributed among these distances:
88 19 0.05
89 27 0.08
90 23 0.06
91 3 0.01
93 2 0.01
95 68 0.19
96 22 0.06
97 36 0.10
98 42 0.12
99 36 0.10
100 50 0.14
101 27 0.08
102 5 0.01
ACGTcount: A:0.21, C:0.35, G:0.14, T:0.31
Consensus pattern (96 bp):
AAAGCCCACAACTCCGTGGCACTCTTTTCCTTTTAAGTCCACAATTCGTGGCACCTTCTTCTTCA
AAGCCCACAACTCCGTGGCACCTTCCCTTTT
Found at i:2044694 original size:32 final size:33
Alignment explanation
Indices: 2044652--2044785 Score: 227
Period size: 32 Copynumber: 4.1 Consensus size: 33
2044642 TCTTTCACCC
2044652 TTCTCTAAAGCCCACACAAGTCGGTGGCAACCT
1 TTCTCTAAAGCCCACACAAGTCGGTGGCAACCT
*
2044685 TTCTC-AAAGCCCACATAAGTCGGTGGCAACCT
1 TTCTCTAAAGCCCACACAAGTCGGTGGCAACCT
*
2044717 TTCTC-AAAGCCCACACAAGTCGGTGGCAACCA
1 TTCTCTAAAGCCCACACAAGTCGGTGGCAACCT
*
2044749 TTCTCTAAAGCCCACACAAGTCGGTGGCAACCC
1 TTCTCTAAAGCCCACACAAGTCGGTGGCAACCT
2044782 TTCT
1 TTCT
2044786 AAGTCCAATA
Statistics
Matches: 96, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
32 61 0.64
33 35 0.36
ACGTcount: A:0.28, C:0.34, G:0.18, T:0.21
Consensus pattern (33 bp):
TTCTCTAAAGCCCACACAAGTCGGTGGCAACCT
Found at i:2044842 original size:49 final size:48
Alignment explanation
Indices: 2044785--2045056 Score: 303
Period size: 43 Copynumber: 5.8 Consensus size: 48
2044775 GCAACCCTTC
*
2044785 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-CTTCATCTT
*
2044834 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA---C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACTTCATCTT
* * *
2044877 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-CTTCATCTT
* * *
2044926 TAAGTCCAATGTAGCTAGCCTTGAATCAGCACATT-G-A---CACCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACTTCATCTT
* *
2044969 TAAGTCCAATATAGCTAGCCTTGAATCAGCATATTGGCACATTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC---TT-CATCTT
* * *
2045021 TAAGTTCAATGTAGTTGGCCTTGAATCAGCACATTG
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTG
2045057 ACATCCTTTT
Statistics
Matches: 189, Mismatches: 19, Indels: 27
0.80 0.08 0.11
Matches are distributed among these distances:
43 76 0.40
44 1 0.01
45 2 0.01
47 2 0.01
48 1 0.01
49 71 0.38
52 36 0.19
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (48 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACTTCATCTT
Found at i:2044947 original size:92 final size:92
Alignment explanation
Indices: 2044780--2045065 Score: 455
Period size: 92 Copynumber: 3.1 Consensus size: 92
2044770 CGGTGGCAAC
2044780 CCTTCTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATG
1 CCTT-TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATG
*
2044845 TAGCTGGCCTTGAATCAGCACATTGGCA
65 TAGCTGGCCTTGAATCAGCACATTGACA
* *
2044873 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
*
2044938 AGCTAGCCTTGAATCAGCACATTGACA
66 AGCTGGCCTTGAATCAGCACATTGACA
* * *
2044965 CCTTTAAGTCCAATATAGCTAGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC--CTT-CATCTTTAAGTCCAA
*
2045030 TGTAGTTGGCCTTGAATCAGCACATTGACA
63 TGTAGCTGGCCTTGAATCAGCACATTGACA
2045060 TCCTTT
1 -CCTTT
2045066 TTCTCATCTT
Statistics
Matches: 178, Mismatches: 11, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
92 126 0.71
93 4 0.02
94 2 0.01
95 41 0.23
96 5 0.03
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.33
Consensus pattern (92 bp):
CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
AGCTGGCCTTGAATCAGCACATTGACA
Found at i:2045042 original size:52 final size:54
Alignment explanation
Indices: 2044966--2045183 Score: 163
Period size: 67 Copynumber: 3.8 Consensus size: 54
2044956 ACATTGACAC
* *
2044966 CTTTAAGTCCAATATAGCTAGCCTTGAATCAGCATATTGGCA-CATTTTC-CAT
1 CTTTAAGTCCAATATAGTTGGCCTTGAATCAGCATATTGGCACCATTTTCTCAT
* * * * *
2045018 CTTTAAGTTCAATGTAGTTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGTTGGCCTTGAATCAGCATATTGGCA-CCATTTTCTCAT
* * * *
2045073 CTTTAAGCCCAATATCA-TTGGTCGTGAATCAACATATTGGCATCGTTATCACTTTTCTCATCTT
1 CTTTAAGTCCAATAT-AGTTGGCCTTGAATCAGCATATTGGCA-C-----CA---TT-T--TC-T
2045137 CAT
52 CAT
* *
2045140 CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACC
1 CTTTAAGTCCAATATAGTTGGCCTTGAATCAGCATATTGGCACC
2045184 TTCATCATCT
Statistics
Matches: 127, Mismatches: 22, Indels: 25
0.73 0.13 0.14
Matches are distributed among these distances:
52 36 0.28
54 6 0.05
55 37 0.29
56 1 0.01
60 1 0.01
61 1 0.01
63 2 0.02
64 1 0.01
66 3 0.02
67 39 0.31
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.37
Consensus pattern (54 bp):
CTTTAAGTCCAATATAGTTGGCCTTGAATCAGCATATTGGCACCATTTTCTCAT
Found at i:2045998 original size:13 final size:13
Alignment explanation
Indices: 2045980--2046004 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2045970 CATAAAGTGT
2045980 TGTATCGATACAA
1 TGTATCGATACAA
2045993 TGTATCGATACA
1 TGTATCGATACA
2046005 TAAGTTCTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2046021 original size:32 final size:33
Alignment explanation
Indices: 2045960--2046025 Score: 109
Period size: 32 Copynumber: 2.0 Consensus size: 33
2045950 TTCAACGATT
2045960 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
2045993 TGTATCGATACAT-AAGT-TCTGTATCGATACAA
1 TGTATCGATACATAAAGTGT-TGTATCGATACAA
2046025 T
1 T
2046026 TTAAGCTACT
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
31 1 0.03
32 18 0.56
33 13 0.41
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.35
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:2046084 original size:13 final size:13
Alignment explanation
Indices: 2046066--2046090 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2046056 ATTACTCAAA
2046066 TGTATCGATACAT
1 TGTATCGATACAT
2046079 TGTATCGATACA
1 TGTATCGATACA
2046091 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2046225 original size:52 final size:52
Alignment explanation
Indices: 2046099--2046227 Score: 204
Period size: 52 Copynumber: 2.5 Consensus size: 52
2046089 CACTGATCTT
* * *
2046099 TGTATCGATACATGTAGGAAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGAAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
2046151 TGTATCGATACATGAAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGAAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
2046203 TGTATCGATACATGCAGCCAAATTT
1 TGTATCGATACATGAAGGCAAATTT
2046228 TCATATTTTG
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 71 1.00
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGAAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:2050082 original size:60 final size:59
Alignment explanation
Indices: 2049972--2050181 Score: 280
Period size: 60 Copynumber: 3.5 Consensus size: 59
2049962 AGAAACATAA
* * * *
2049972 AGAAACCTCAATAATAACTTAGGTGAAAC-CAGACTTAACTAAATGGCTTGGATGAAACC
1 AGAAACCTAAACAATGACTTAGGTGAAACTAAGACTTAACTAAATGGCTTGGAT-AAACC
*
2050031 AGAAACCTAAACAATGACTTAGGTGAAACTAAGACTTAACTAAATGGCTTGGATAAAAC
1 AGAAACCTAAACAATGACTTAGGTGAAACTAAGACTTAACTAAATGGCTTGGATAAACC
* * * *
2050090 TGAAAACCTAAACAAAGACTTAGGTGAAACCAAGACTCAACTAAATGGCTTGGATAAAACC
1 AG-AAACCTAAACAATGACTTAGGTGAAACTAAGACTTAACTAAATGGCTTGGAT-AAACC
*
2050151 A-AAGACCTAAACAATGACTTAGATGAAACTA
1 AGAA-ACCTAAACAATGACTTAGGTGAAACTA
2050182 GAATAGTTAA
Statistics
Matches: 133, Mismatches: 14, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
59 33 0.25
60 96 0.72
61 4 0.03
ACGTcount: A:0.46, C:0.18, G:0.16, T:0.20
Consensus pattern (59 bp):
AGAAACCTAAACAATGACTTAGGTGAAACTAAGACTTAACTAAATGGCTTGGATAAACC
Found at i:2050090 original size:30 final size:30
Alignment explanation
Indices: 2049995--2050152 Score: 114
Period size: 30 Copynumber: 5.3 Consensus size: 30
2049985 ATAACTTAGG
2049995 TGAAACC-AGACTTAACTAAATGGCTTGGA
1 TGAAACCAAGACTTAACTAAATGGCTTGGA
* * *
2050024 TGAAACCAGAAACCTAA--ACAATGACTTAGG-
1 TGAAACCA-AGACTTAACTA-AATGGCTT-GGA
*
2050054 TGAAACTAAGACTTAACTAAATGGCTTGGA
1 TGAAACCAAGACTTAACTAAATGGCTTGGA
* * * * *
2050084 TAAAACTGAAAACCTAAAC-AAA-GACTTAGG-
1 TGAAAC-CAAGA-CTTAACTAAATGGCTT-GGA
*
2050114 TGAAACCAAGACTCAACTAAATGGCTTGGA
1 TGAAACCAAGACTTAACTAAATGGCTTGGA
*
2050144 TAAAACCAA
1 TGAAACCAA
2050153 AGACCTAAAC
Statistics
Matches: 98, Mismatches: 18, Indels: 25
0.70 0.13 0.18
Matches are distributed among these distances:
28 5 0.05
29 24 0.24
30 47 0.48
31 17 0.17
32 5 0.05
ACGTcount: A:0.45, C:0.18, G:0.17, T:0.20
Consensus pattern (30 bp):
TGAAACCAAGACTTAACTAAATGGCTTGGA
Found at i:2051133 original size:88 final size:88
Alignment explanation
Indices: 2050843--2051133 Score: 291
Period size: 88 Copynumber: 3.3 Consensus size: 88
2050833 GAAACAATGT
* * * * * * ** *
2050843 AAATGCAAACATTAATAAACTAACAAATACAAATGAAATAATGCAAATACCAATGTTATATAAAA
1 AAATGCAAGCATCAATAAAATAACAAATGCATATGAAATGATGCAAATACCAATGCCATCTAAAA
* * *
2050908 TGCAAATGT-GCATGAAAAGGTGC
66 TGCAAATGTAG-GTGAAATGATGC
* * ** *
2050931 AAATGCAGGCAT-ATTAAAATGGCAAATGCATATGAAATGATGCAAGTACCAATGCCATCTAAAA
1 AAATGCAAGCATCAATAAAATAACAAATGCATATGAAATGATGCAAATACCAATGCCATCTAAAA
** * *
2050995 TGCAAATACATGTAAAATGATGC
66 TGCAAATGTAGGTGAAATGATGC
* * ** * *
2051018 AAATGCAAGCATCAACAAAA-AGGCAAATGCATATTTAATGATACAAATACAAATGCCATCTAAA
1 AAATGCAAGCATCAATAAAATA-ACAAATGCATATGAAATGATGCAAATACCAATGCCATCTAAA
*
2051082 ATGCAAGTGTAGGTGAAATGATGC
65 ATGCAAATGTAGGTGAAATGATGC
2051106 AAATGCAAGCATCAATAAAATAACAAAT
1 AAATGCAAGCATCAATAAAATAACAAAT
2051134 TTACAAGAAA
Statistics
Matches: 163, Mismatches: 36, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
87 67 0.41
88 95 0.58
89 1 0.01
ACGTcount: A:0.49, C:0.14, G:0.15, T:0.22
Consensus pattern (88 bp):
AAATGCAAGCATCAATAAAATAACAAATGCATATGAAATGATGCAAATACCAATGCCATCTAAAA
TGCAAATGTAGGTGAAATGATGC
Found at i:2051153 original size:88 final size:88
Alignment explanation
Indices: 2050953--2051161 Score: 222
Period size: 88 Copynumber: 2.4 Consensus size: 88
2050943 ATTAAAATGG
* * * * *
2050953 CAAATGCATATGAAATGATGCAAGTACCAATGCCATCTAAAATGCAAATACATGTAAAATGATGC
1 CAAATGCACAAGAAATGATGCAAATACAAATGCCATCTAAAATGCAAATACAGGTAAAATGATGC
*
2051018 AAATGCAAGCATCAACAAAAAGG
66 AAATGCAAGCATCAACAAAAAGA
* *** * * ** *
2051041 CAAATGCATATTTAATGATACAAATACAAATGCCATCTAAAATGCAAGTGTAGGTGAAATGATGC
1 CAAATGCACAAGAAATGATGCAAATACAAATGCCATCTAAAATGCAAATACAGGTAAAATGATGC
*
2051106 AAATGCAAGCATCAATAAAATA-A
66 AAATGCAAGCATCAACAAAA-AGA
** * *
2051129 CAAATTTACAAGAAACGATGCAAATGCAAATGC
1 CAAATGCACAAGAAATGATGCAAATACAAATGC
2051162 AGTCTAATTC
Statistics
Matches: 99, Mismatches: 21, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
88 98 0.99
89 1 0.01
ACGTcount: A:0.48, C:0.16, G:0.15, T:0.21
Consensus pattern (88 bp):
CAAATGCACAAGAAATGATGCAAATACAAATGCCATCTAAAATGCAAATACAGGTAAAATGATGC
AAATGCAAGCATCAACAAAAAGA
Found at i:2051799 original size:20 final size:19
Alignment explanation
Indices: 2051747--2051804 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 19
2051737 TAAGGCTTCA
2051747 TTCTTTC-CATTTTTTATTTT
1 TTCTTTCTC-TTTTTT-TTTT
*
2051767 TTCTTGT-TTTTTTTTTCTTT
1 TTCTT-TCTCTTTTTTT-TTT
2051787 TTCTTTCTCTTTTTTTTT
1 TTCTTTCTCTTTTTTTTT
2051805 ATTGCTTCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
19 4 0.12
20 27 0.84
21 1 0.03
ACGTcount: A:0.03, C:0.14, G:0.02, T:0.81
Consensus pattern (19 bp):
TTCTTTCTCTTTTTTTTTT
Found at i:2052084 original size:17 final size:17
Alignment explanation
Indices: 2052054--2052086 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
2052044 CATTCATTTC
2052054 TTCATCTTTTTCTTTTA
1 TTCATCTTTTTCTTTTA
2052071 TTCAT-TTTTCTCTTTT
1 TTCATCTTTT-TCTTTT
2052087 CCTCACTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.09, C:0.18, G:0.00, T:0.73
Consensus pattern (17 bp):
TTCATCTTTTTCTTTTA
Found at i:2052144 original size:18 final size:18
Alignment explanation
Indices: 2052123--2052181 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
2052113 ATTTTATGTT
*
2052123 TTTTTTTGTTTTTCTCTC
1 TTTTTTTATTTTTCTCTC
* *
2052141 TTTTTTCATTTTT-TCATA
1 TTTTTTTATTTTTCTC-TC
* *
2052159 TTTTTTTCTTCTTCT-TC
1 TTTTTTTATTTTTCTCTC
2052176 TTTTTT
1 TTTTTT
2052182 CTTATTTAGA
Statistics
Matches: 32, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
17 9 0.28
18 22 0.69
19 1 0.03
ACGTcount: A:0.05, C:0.15, G:0.02, T:0.78
Consensus pattern (18 bp):
TTTTTTTATTTTTCTCTC
Found at i:2052162 original size:27 final size:27
Alignment explanation
Indices: 2052131--2052188 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
2052121 TTTTTTTTTG
*
2052131 TTTTTCTC-TCTTTTTTCATTTTTTCATA
1 TTTTTCTCTTC-TTCTTC-TTTTTTCATA
* *
2052159 TTTTTTTCTTCTTCTTCTTTTTTCTTA
1 TTTTTCTCTTCTTCTTCTTTTTTCATA
2052186 TTT
1 TTT
2052189 AGAGGAAACT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
27 12 0.46
28 12 0.46
29 2 0.08
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.76
Consensus pattern (27 bp):
TTTTTCTCTTCTTCTTCTTTTTTCATA
Found at i:2052763 original size:52 final size:51
Alignment explanation
Indices: 2052688--2052796 Score: 128
Period size: 51 Copynumber: 2.1 Consensus size: 51
2052678 AATGTATCAG
* * * * * * * *
2052688 TACATTTTTCATTGTATCGATACATTCTGGGTTTTTGACCTAAATGTATTGA
1 TACATTATTAATTGCATCCATACATT-TGCGATTTTGACCCAAATATATTGA
*
2052740 TACATTATTAATTGCATCCATACATTTTCGATTTTGACCCAAATATATTGA
1 TACATTATTAATTGCATCCATACATTTGCGATTTTGACCCAAATATATTGA
2052791 TACATT
1 TACATT
2052797 TTTTAATATT
Statistics
Matches: 48, Mismatches: 9, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
51 26 0.54
52 22 0.46
ACGTcount: A:0.29, C:0.16, G:0.11, T:0.44
Consensus pattern (51 bp):
TACATTATTAATTGCATCCATACATTTGCGATTTTGACCCAAATATATTGA
Found at i:2054445 original size:57 final size:57
Alignment explanation
Indices: 2054339--2054455 Score: 148
Period size: 57 Copynumber: 2.1 Consensus size: 57
2054329 GATGAAATTA
* *
2054339 ATGTAATGTCAAAGAAAACGTTATGACAATCAGATGTGTACATGTATGTATGTATGC
1 ATGTAATGTCAAAGAAAACGTTATGACAATCAGATGAGTACATGCATGTATGTATGC
* * **
2054396 ATGTAATGTCAAAGAAAA-GTTATGATAGTTGGATGAAAGTA-ATGCATGTATGTATGC
1 ATGTAATGTCAAAGAAAACGTTATGACAATCAGATG--AGTACATGCATGTATGTATGC
2054453 ATG
1 ATG
2054456 CATGTAATAC
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
56 13 0.25
57 36 0.69
58 3 0.06
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.32
Consensus pattern (57 bp):
ATGTAATGTCAAAGAAAACGTTATGACAATCAGATGAGTACATGCATGTATGTATGC
Found at i:2070637 original size:16 final size:15
Alignment explanation
Indices: 2070612--2070672 Score: 50
Period size: 15 Copynumber: 4.0 Consensus size: 15
2070602 CCATTATACC
*
2070612 AAAAATAAAAAATAAA
1 AAAAACAAAAAA-AAA
*
2070628 AAAAACAAAAAAACA
1 AAAAACAAAAAAAAA
* *
2070643 AAAAACCAAGAAAAA
1 AAAAACAAAAAAAAA
* **
2070658 ATAGCCAAAAAAAAA
1 AAAAACAAAAAAAAA
2070673 CCAGAAAGTG
Statistics
Matches: 35, Mismatches: 10, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
15 24 0.69
16 11 0.31
ACGTcount: A:0.82, C:0.10, G:0.03, T:0.05
Consensus pattern (15 bp):
AAAAACAAAAAAAAA
Found at i:2071990 original size:32 final size:32
Alignment explanation
Indices: 2071905--2072693 Score: 522
Period size: 28 Copynumber: 26.2 Consensus size: 32
2071895 TTTAAAGCCT
* *
2071905 ACAAGTCAGTGGC-AC-CCTTTCAAAG-CC-C
1 ACAAGTCGGTGGCAACTCATTTCAAAGCCCAC
* *
2071933 ACAAGTCAGTGGC-A-TCATTTTAAAGCCCAC
1 ACAAGTCGGTGGCAACTCATTTCAAAGCCCAC
*
2071963 ACAAGTCGGTGGCAACTCATTTGAAAGCCCAC
1 ACAAGTCGGTGGCAACTCATTTCAAAGCCCAC
*
2071995 ACAAGTCGGTGGC-A-TCTTTTCAAAG-CC-C
1 ACAAGTCGGTGGCAACTCATTTCAAAGCCCAC
* * * *
2072023 ACAAGTCAGTGGC-A-TCCTTTGAAAG--CTC
1 ACAAGTCGGTGGCAACTCATTTCAAAGCCCAC
* *
2072051 ACAAGTCAGTGGCACCCAGTGGCACCCTTTCAAAG-CC-C
1 ACAAGTCGGTGGCA---ACT--CA---TTTCAAAGCCCAC
** *
2072089 ACAAGTTAGTGGC-AC-CCTTTCAAAG-CC-C
1 ACAAGTCGGTGGCAACTCATTTCAAAGCCCAC
* * *
2072117 ACGAGTCGATGGCAACTCTTTTCAAAG-CC-C
1 ACAAGTCGGTGGCAACTCATTTCAAAGCCCAC
* *
2072147 ACAAGTCAGTGGC-AC-CCTTTCAAAGCCCAC
1 ACAAGTCGGTGGCAACTCATTTCAAAGCCCAC
* * *
2072177 ATAAGTCGGTGGCAACTCATTTGAAAGTCCAC
1 ACAAGTCGGTGGCAACTCATTTCAAAGCCCAC
2072209 ACAAGTCGGTGGC-A-TCATTTCAAAGCCCAC
1 ACAAGTCGGTGGCAACTCATTTCAAAGCCCAC
2072239 ACAAGTCGGTGGCAACTCATTTCAAAGCCCAC
1 ACAAGTCGGTGGCAACTCATTTCAAAGCCCAC
* *
2072271 ACAAGTTGGTGGCAACCCATTTCAAAGCCCAC
1 ACAAGTCGGTGGCAACTCATTTCAAAGCCCAC
* * *
2072303 ACAAGTTGGTGGCAACCCATTTCAAAGCCCGC
1 ACAAGTCGGTGGCAACTCATTTCAAAGCCCAC
* *
2072335 ACAAGTTGGTGGCAACCCATTTCAAAGCCCAC
1 ACAAGTCGGTGGCAACTCATTTCAAAGCCCAC
* *
2072367 ACAAGTCAGTGGC-AC-CCTTTCAAAG-CC-C
1 ACAAGTCGGTGGCAACTCATTTCAAAGCCCAC
* *
2072395 ACGAGTCGGTGGCAACTCTTTTCAAAG-CC-C
1 ACAAGTCGGTGGCAACTCATTTCAAAGCCCAC
* *** *
2072425 ATAAGTTAATGGC-ACTCTTTTCAAAG-CC-C
1 ACAAGTCGGTGGCAACTCATTTCAAAGCCCAC
* ** * *
2072454 ATAAGTTAGTGAC-A-TCCTTTCAAAG-CC-C
1 ACAAGTCGGTGGCAACTCATTTCAAAGCCCAC
* * *
2072482 ACAAGTCAGTGGC-AC-CCTTTCAAAG-TC-C
1 ACAAGTCGGTGGCAACTCATTTCAAAGCCCAC
** *
2072510 ACAAGTTAGTGGC-ACTCTTTTCAAAG-CC-C
1 ACAAGTCGGTGGCAACTCATTTCAAAGCCCAC
* *
2072539 ACAAGTCAGTGGC-A-TCCTTTCAAAG-CC-C
1 ACAAGTCGGTGGCAACTCATTTCAAAGCCCAC
* *
2072567 ACAAGTCAGTGGC-AC-CCTTTCAAAG-CC-C
1 ACAAGTCGGTGGCAACTCATTTCAAAGCCCAC
* *
2072595 ACAAGTCAGTGGCAA-TCTTTTCAAAG-CC-C
1 ACAAGTCGGTGGCAACTCATTTCAAAGCCCAC
* * * * *
2072624 ACAAGCCAGTGGTAACTCTTTTCAAAGCCTAC
1 ACAAGTCGGTGGCAACTCATTTCAAAGCCCAC
* * * *
2072656 ACGAGTCGGTGGCGACTCTTTTCAAAACCCAC
1 ACAAGTCGGTGGCAACTCATTTCAAAGCCCAC
2072688 ACAAGT
1 ACAAGT
2072694 TAATGGCATT
Statistics
Matches: 656, Mismatches: 70, Indels: 66
0.83 0.09 0.08
Matches are distributed among these distances:
27 1 0.00
28 203 0.31
29 92 0.14
30 123 0.19
31 10 0.02
32 203 0.31
33 1 0.00
34 1 0.00
35 1 0.00
38 20 0.03
39 1 0.00
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (32 bp):
ACAAGTCGGTGGCAACTCATTTCAAAGCCCAC
Found at i:2072007 original size:62 final size:61
Alignment explanation
Indices: 2071898--2072688 Score: 586
Period size: 62 Copynumber: 13.2 Consensus size: 61
2071888 TCATCTCTTT
* * * * *
2071898 AAAGCCTACAAGTCAGTGGCAC-CCTTTCAAAG-CC-CACAAGTCAGTGGC-A-TCATTTT
1 AAAGCCCACAAGTCGGTGGCACTCATTTCAAAGCCCACACAAGTCGGTGGCAACTCATTTC
* *
2071954 AAAGCCCACACAAGTCGGTGGCAACTCATTTGAAAGCCCACACAAGTCGGTGGC-A-TCTTTTC
1 AAAG-CC-CACAAGTCGGTGGC-ACTCATTTCAAAGCCCACACAAGTCGGTGGCAACTCATTTC
* * * * * *
2072016 AAAGCCCACAAGTCAGTGGCA-TCCTTTGAAAG--CTCACAAGTCAGTGGCACCCAGTGGCACCC
1 AAAGCCCACAAGTCGGTGGCACTCATTTCAAAGCCCACACAAGTCGGTGGCA---ACT--CA---
2072078 TTTC
58 TTTC
** * * * *
2072082 AAAGCCCACAAGTTAGTGGCAC-CCTTTCAAAG-CC-CACGAGTCGATGGCAACTCTTTTC
1 AAAGCCCACAAGTCGGTGGCACTCATTTCAAAGCCCACACAAGTCGGTGGCAACTCATTTC
* * * *
2072140 AAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACATAAGTCGGTGGCAACTCATTTG
1 AAAGCCCACAAGTCGGTGGCACTCATTTCAAAGCCCACACAAGTCGGTGGCAACTCATTTC
2072200 AAAGTCCACACAAGTCGGTGGCA-TCATTTCAAAGCCCACACAAGTCGGTGGCAACTCATTTC
1 AAAG-CC-CACAAGTCGGTGGCACTCATTTCAAAGCCCACACAAGTCGGTGGCAACTCATTTC
* * * *
2072262 AAAGCCCACACAAGTTGGTGGCAACCCATTTCAAAGCCCACACAAGTTGGTGGCAACCCATTTC
1 AAAG-CC-CACAAGTCGGTGGC-ACTCATTTCAAAGCCCACACAAGTCGGTGGCAACTCATTTC
* * * *
2072326 AAAGCCCGCACAAGTTGGTGGCAACCCATTTCAAAGCCCACACAAGTCAGTGGC-AC-CCTTTC
1 AAAG-CC-CACAAGTCGGTGGC-ACTCATTTCAAAGCCCACACAAGTCGGTGGCAACTCATTTC
* * * *** *
2072388 AAAGCCCACGAGTCGGTGGCAACTCTTTTCAAAG-CC-CATAAGTTAATGGC-ACTCTTTTC
1 AAAGCCCACAAGTCGGTGGC-ACTCATTTCAAAGCCCACACAAGTCGGTGGCAACTCATTTC
* ** * * * *
2072447 AAAGCCCATAAGTTAGTGACA-TCCTTTCAAAG-CC-CACAAGTCAGTGGC-AC-CCTTTC
1 AAAGCCCACAAGTCGGTGGCACTCATTTCAAAGCCCACACAAGTCGGTGGCAACTCATTTC
* ** * * *
2072503 AAAGTCCACAAGTTAGTGGCACTCTTTTCAAAG-CC-CACAAGTCAGTGGC-A-TCCTTTC
1 AAAGCCCACAAGTCGGTGGCACTCATTTCAAAGCCCACACAAGTCGGTGGCAACTCATTTC
* * * *
2072560 AAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAG-CC-CACAAGTCAGTGGCAA-TCTTTTC
1 AAAGCCCACAAGTCGGTGGCACTCATTTCAAAGCCCACACAAGTCGGTGGCAACTCATTTC
* * * * * * * *
2072617 AAAGCCCACAAGCCAGTGGTAACTCTTTTCAAAGCCTACACGAGTCGGTGGCGACTCTTTTC
1 AAAGCCCACAAGTCGGTGG-CACTCATTTCAAAGCCCACACAAGTCGGTGGCAACTCATTTC
*
2072679 AAAACCCACA
1 AAAGCCCACA
2072689 CAAGTTAATG
Statistics
Matches: 629, Mismatches: 72, Indels: 62
0.82 0.09 0.08
Matches are distributed among these distances:
56 66 0.10
57 105 0.17
58 73 0.12
59 36 0.06
60 70 0.11
61 23 0.04
62 117 0.19
63 6 0.01
64 87 0.14
66 45 0.07
67 1 0.00
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (61 bp):
AAAGCCCACAAGTCGGTGGCACTCATTTCAAAGCCCACACAAGTCGGTGGCAACTCATTTC
Found at i:2072080 original size:38 final size:38
Alignment explanation
Indices: 2072029--2072105 Score: 118
Period size: 38 Copynumber: 2.0 Consensus size: 38
2072019 GCCCACAAGT
* * *
2072029 CAGTGGCATCCTTTGAAAGCTCACAAGTCAGTGGCACC
1 CAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACC
*
2072067 CAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACC
1 CAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACC
2072105 C
1 C
2072106 TTTCAAAGCC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.26, C:0.32, G:0.22, T:0.19
Consensus pattern (38 bp):
CAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACC
Found at i:2072108 original size:28 final size:28
Alignment explanation
Indices: 2072067--2072635 Score: 528
Period size: 28 Copynumber: 19.2 Consensus size: 28
2072057 CAGTGGCACC
2072067 CAGTGGCACCCTTTCAAAGCCCACAAGT
1 CAGTGGCACCCTTTCAAAGCCCACAAGT
* *
2072095 TAGTGGCACCCTTTCAAAGCCCACGAGT
1 CAGTGGCACCCTTTCAAAGCCCACAAGT
*
2072123 C-GATGGCAACTCTTTTCAAAGCCCACAAGT
1 CAG-TGGC-AC-CCTTTCAAAGCCCACAAGT
2072153 CAGTGGCACCCTTTCAAAGCCCACATAAGT
1 CAGTGGCACCCTTTCAAAGCCCAC--AAGT
* * *
2072183 CGGTGGCAACTCATTTGAAAGTCCACACAAGT
1 CAGTGGC-AC-CCTTTCAAAG-CC-CACAAGT
* * *
2072215 CGGTGGCATCATTTCAAAGCCCACACAAGT
1 CAGTGGCACCCTTTCAAAG-CC-CACAAGT
* *
2072245 CGGTGGCAACTCATTTCAAAGCCCACACAAGT
1 CAGTGGC-AC-CCTTTCAAAG-CC-CACAAGT
**
2072277 TGGTGGCAACCCATTTCAAAGCCCACACAAGT
1 CAGTGGC-ACCC-TTTCAAAG-CC-CACAAGT
**
2072309 TGGTGGCAACCCATTTCAAAGCCCGCACAAGT
1 CAGTGGC-ACCC-TTTCAAAG-CC-CACAAGT
**
2072341 TGGTGGCAACCCATTTCAAAGCCCACACAAGT
1 CAGTGGC-ACCC-TTTCAAAG-CC-CACAAGT
*
2072373 CAGTGGCACCCTTTCAAAGCCCACGAGT
1 CAGTGGCACCCTTTCAAAGCCCACAAGT
* * *
2072401 CGGTGGCAACTCTTTTCAAAGCCCATAAGT
1 CAGTGGC-AC-CCTTTCAAAGCCCACAAGT
* * * *
2072431 TAATGGCACTCTTTTCAAAGCCCATAAGT
1 CAGTGGCAC-CCTTTCAAAGCCCACAAGT
* * *
2072460 TAGTGACATCCTTTCAAAGCCCACAAGT
1 CAGTGGCACCCTTTCAAAGCCCACAAGT
*
2072488 CAGTGGCACCCTTTCAAAGTCCACAAGT
1 CAGTGGCACCCTTTCAAAGCCCACAAGT
* *
2072516 TAGTGGCACTCTTTTCAAAGCCCACAAGT
1 CAGTGGCAC-CCTTTCAAAGCCCACAAGT
*
2072545 CAGTGGCATCCTTTCAAAGCCCACAAGT
1 CAGTGGCACCCTTTCAAAGCCCACAAGT
2072573 CAGTGGCACCCTTTCAAAGCCCACAAGT
1 CAGTGGCACCCTTTCAAAGCCCACAAGT
* * *
2072601 CAGTGGCAATCTTTTCAAAGCCCACAAGC
1 CAGTGGC-ACCCTTTCAAAGCCCACAAGT
2072630 CAGTGG
1 CAGTGG
2072636 TAACTCTTTT
Statistics
Matches: 478, Mismatches: 46, Indels: 33
0.86 0.08 0.06
Matches are distributed among these distances:
27 1 0.00
28 157 0.33
29 84 0.18
30 86 0.18
31 10 0.02
32 135 0.28
33 2 0.00
34 3 0.01
ACGTcount: A:0.29, C:0.31, G:0.19, T:0.21
Consensus pattern (28 bp):
CAGTGGCACCCTTTCAAAGCCCACAAGT
Found at i:2072130 original size:66 final size:63
Alignment explanation
Indices: 2072003--2072635 Score: 321
Period size: 57 Copynumber: 10.5 Consensus size: 63
2071993 ACACAAGTCG
* * *
2072003 GTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTGAAAGCTCACAAGTCAGTGGCACCC
1 GTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA---
2072068 A
63 A
* * * *
2072069 GTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACGAGTC-GATGGCAA
1 GTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAG-TGGCAA
*
2072132 ----C-TCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACATAAGTCGGTGGCAA
1 GTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCAC--AAGTCAGTGGCAA
* * * * * *
2072192 ----C-TCATTTGAAAGTCCACACAAGTCGGTGGCATCATTTCAAAGCCCACACAAGTCGGTGGC
1 GTGGCATCTTTTCAAAG-CC-CACAAGTCAGTGGCACCCTTTCAAAG-CC-CACAAGTCAGTGGC
2072252 AA
62 AA
* ** **
2072254 ----C-TCATTTCAAAGCCCACACAAGTTGGTGGCAACCCATTTCAAAGCCCACACAAGTTGGTG
1 GTGGCATCTTTTCAAAG-CC-CACAAGTCAGTGGC-ACCC-TTTCAAAG-CC-CACAAGTCAGTG
2072314 GCAA
60 GCAA
* * **
2072318 ----C-CCATTTCAAAGCCCGCACAAGTTGGTGGCAACCCATTTCAAAGCCCAC-A--CAAGT--
1 GTGGCATCTTTTCAAAG-CC-CACAAGTCAGTGGC-ACCC-TTTCAAAGCCCACAAGTC-AGTGG
2072373 C-A
61 CAA
* * * * * *
2072375 GTGGCACCCTTTCAAAGCCCACGAGTCGGTGGCAACTCTTTTCAAAGCCCATAAGT---T---AA
1 GTGGCATCTTTTCAAAGCCCACAAGTCAGTGGC-AC-CCTTTCAAAGCCCACAAGTCAGTGGCAA
* * * *
2072434 -TGGCACTCTTTTCAAAGCCCATAAGTTAGTGACATCCTTTCAAAGCCCACAAGTCAGTGGC-A
1 GTGGCA-TCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAA
* * * *
2072496 ----C--CCTTTCAAAGTCCACAAGTTAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGC-A
1 GTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCAA
2072553 -T--C--C-TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGC-A
1 GTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAA
*
2072609 -----ATCTTTTCAAAGCCCACAAGCCAGTGG
1 GTGGCATCTTTTCAAAGCCCACAAGTCAGTGG
2072636 TAACTCTTTT
Statistics
Matches: 483, Mismatches: 51, Indels: 75
0.79 0.08 0.12
Matches are distributed among these distances:
56 50 0.10
57 90 0.19
58 50 0.10
59 24 0.05
60 50 0.10
61 9 0.02
62 77 0.16
63 7 0.01
64 72 0.15
65 1 0.00
66 53 0.11
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (63 bp):
GTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAA
Found at i:2072525 original size:85 final size:86
Alignment explanation
Indices: 2072067--2072688 Score: 579
Period size: 85 Copynumber: 7.0 Consensus size: 86
2072057 CAGTGGCACC
* * * *
2072067 CAGTGGCAC-CCTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACGAGTCGATGGCA
1 CAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCGGTGGCA
*
2072131 ACTCTTTTCAAAGCCCACAAGT
66 AC-CCTTTCAAAGCCCACAAGT
* * * *
2072153 CAGTGGCAC-CCTTTCAAAGCCCACATAAGTCGGTGGCAACTCATTTGAAAGTCCACACAAGTCG
1 CAGTGGCACTCTTTTCAAAGCCCAC--AAGTCAGTGGC-AC-CCTTTCAAAG-CC-CACAAGTCG
* *
2072217 GTGGC-ATCATTTCAAAGCCCACACAAGT
60 GTGGCAACCCTTTCAAAG-CC-CACAAGT
* * ** *
2072245 CGGTGGCAACTCATTTCAAAGCCCACACAAGTTGGTGGCAACCCATTTCAAAGCCCACACAAGTT
1 CAGTGGC-ACTCTTTTCAAAG-CC-CACAAGTCAGTGGC-ACCC-TTTCAAAG-CC-CACAAGTC
2072310 GGTGGCAACCCATTTCAAAGCCCGCACAAGT
59 GGTGGCAACCC-TTTCAAAG-CC-CACAAGT
** * * *
2072341 TGGTGGCAACCCATTTCAAAGCCCACACAAGTCAGTGGCACCCTTTCAAAGCCCACGAGTCGGTG
1 CAGTGGC-ACTCTTTTCAAAG-CC-CACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCGGTG
* *
2072406 GCAACTCTTTTCAAAGCCCATAAGT
63 GCAAC-CCTTTCAAAGCCCACAAGT
* * * * * * *
2072431 TAATGGCACTCTTTTCAAAGCCCATAAGTTAGTGACATCCTTTCAAAGCCCACAAGTCAGTGGC-
1 CAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCGGTGGCA
*
2072495 ACCCTTTCAAAGTCCACAAGT
66 ACCCTTTCAAAGCCCACAAGT
* * *
2072516 TAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGC-
1 CAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCGGTGGCA
2072580 ACCCTTTCAAAGCCCACAAGT
66 ACCCTTTCAAAGCCCACAAGT
* * * * *
2072601 CAGTGGCAATCTTTTCAAAGCCCACAAGCCAGTGGTAACTCTTTTCAAAGCCTACACGAGTCGGT
1 CAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGG-CAC-CCTTTCAAAGCC--CACAAGTCGGT
* * *
2072666 GGCGACTCTTTTCAAAACCCACA
62 GGCAAC-CCTTTCAAAGCCCACA
2072689 CAAGTTAATG
Statistics
Matches: 460, Mismatches: 54, Indels: 39
0.83 0.10 0.07
Matches are distributed among these distances:
85 128 0.28
86 27 0.06
87 47 0.10
88 11 0.02
89 25 0.05
90 30 0.07
91 21 0.05
92 48 0.10
93 6 0.01
94 53 0.12
95 8 0.02
96 56 0.12
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.22
Consensus pattern (86 bp):
CAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCGGTGGCA
ACCCTTTCAAAGCCCACAAGT
Found at i:2073599 original size:20 final size:20
Alignment explanation
Indices: 2073576--2073646 Score: 88
Period size: 20 Copynumber: 3.5 Consensus size: 20
2073566 AAGTACCCAG
*
2073576 ATGTATTGATACATTTTTTA
1 ATGTATCGATACATTTTTTA
* * *
2073596 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTTA
* *
2073616 ATGTATTGATACATTCTTTA
1 ATGTATCGATACATTTTTTA
2073636 ATGTATCGATA
1 ATGTATCGATA
2073647 TATTCTGTCT
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.32, C:0.08, G:0.14, T:0.45
Consensus pattern (20 bp):
ATGTATCGATACATTTTTTA
Found at i:2074713 original size:52 final size:51
Alignment explanation
Indices: 2074557--2074713 Score: 128
Period size: 52 Copynumber: 3.0 Consensus size: 51
2074547 GTTGGACTCA
* * *
2074557 ATGTATCGATACTATTCACAATATATCGATACATTAATAGTGATGAACAGTG
1 ATGTATCGATACTATTCACAAT-TATCGATACATGAACAGTAATGAACAGTG
* * *
2074609 ATTTATCGATAC-A-T--GAA-TAGT-GATACGTGAACAGTATGAACAGTGAACAGTG
1 ATGTATCGATACTATTCACAATTA-TCGATACATGAACAG--T--A-A-TGAACAGTG
*
2074661 ATGTATCGATACTATTCACAATGTATCGATACATGAACAGTAATGAATAGTG
1 ATGTATCGATACTATTCACAAT-TATCGATACATGAACAGTAATGAACAGTG
2074713 A
1 A
2074714 AAAATGAGAT
Statistics
Matches: 81, Mismatches: 10, Indels: 28
0.68 0.08 0.24
Matches are distributed among these distances:
46 12 0.15
47 1 0.01
48 3 0.04
50 1 0.01
51 2 0.02
52 40 0.49
53 2 0.02
54 2 0.02
56 3 0.04
57 1 0.01
58 14 0.17
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (51 bp):
ATGTATCGATACTATTCACAATTATCGATACATGAACAGTAATGAACAGTG
Found at i:2074759 original size:13 final size:13
Alignment explanation
Indices: 2074741--2074765 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2074731 CTGCCAGTTT
2074741 ATGTATCGATACA
1 ATGTATCGATACA
2074754 ATGTATCGATAC
1 ATGTATCGATAC
2074766 TAAGCAAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2079743 original size:21 final size:20
Alignment explanation
Indices: 2079696--2079735 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
2079686 TTAAAATAAA
*
2079696 AAAAAGGTCCCTAAAATGTT
1 AAAAATGTCCCTAAAATGTT
*
2079716 AAAAATGTCCCTAATATGTT
1 AAAAATGTCCCTAAAATGTT
2079736 TGAAAATGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.30
Consensus pattern (20 bp):
AAAAATGTCCCTAAAATGTT
Found at i:2080932 original size:151 final size:150
Alignment explanation
Indices: 2080776--2081185 Score: 434
Period size: 152 Copynumber: 2.7 Consensus size: 150
2080766 TTTTTATATG
* * * * *
2080776 AAAAAAATGCAAAACTCATAAAATAAATTGAATATTTAAAAATTAATTTAATATGAATTCAATAA
1 AAAAAAATTCAAAACTCATAAAATAAATTGAATTTTTAAAAA-TGATTTAATATGAATTAAACAA
** * *
2080841 AAATATAT-AATGAATTTTAAAAATTTTAAACTGAGAAAAATTCAACTGGAGAAATTTAT-GAAG
65 AAATATATGAA-GAATTTT-AAAATAATAAACTGAGAAAAATCCAACTAGAGAAATTTATAG-AG
* *
2080904 TAGAAAACTCCATATCT-TAGTATC
127 TAGAAAACTCCACATCTCGAGTA-C
* * * * *
2080928 AAAAAATTTTAAAACTCATAAAATAAATTAAATTTTTTTAAAATGATTTAATAGGAATTAAACAA
1 AAAAAAATTCAAAACTCATAAAATAAATTGAA-TTTTTAAAAATGATTTAATATGAATTAAACAA
* * * * *
2080993 TAATATTTGAAGAATTTTAAAATAATAAACTTAGAAAAATCCTATTAGAGAAATTTATAGAGTAG
65 AAATATATGAAGAATTTTAAAATAATAAACTGAGAAAAATCCAACTAGAGAAATTTATAGAGTAG
* *
2081058 AAAACTCCACATGTCGATTAC
130 AAAACTCCACATCTCGAGTAC
*
2081079 AAGAAAAATTCTAAAACTCATAAAATAAATTGAATTTTTCAAAAGTGATTTAATATGAATTAAA-
1 AA-AAAAATTC-AAAACTCATAAAATAAATTGAATTTTT-AAAAATGATTTAATATGAATTAAAC
* * *
2081143 AAATATTATTTGAAGAATTTTGAAAACT-ATAAACTTAGAAAAA
63 AAA-AATATATGAAGAATTTT-AAAA-TAATAAACTGAGAAAAA
2081186 AATCAATTTA
Statistics
Matches: 217, Mismatches: 31, Indels: 18
0.82 0.12 0.07
Matches are distributed among these distances:
151 53 0.24
152 76 0.35
153 68 0.31
154 19 0.09
155 1 0.00
ACGTcount: A:0.52, C:0.07, G:0.09, T:0.32
Consensus pattern (150 bp):
AAAAAAATTCAAAACTCATAAAATAAATTGAATTTTTAAAAATGATTTAATATGAATTAAACAAA
AATATATGAAGAATTTTAAAATAATAAACTGAGAAAAATCCAACTAGAGAAATTTATAGAGTAGA
AAACTCCACATCTCGAGTAC
Found at i:2081139 original size:153 final size:150
Alignment explanation
Indices: 2080777--2081185 Score: 461
Period size: 153 Copynumber: 2.7 Consensus size: 150
2080767 TTTTATATGA
* * * *
2080777 AAAAAATGC-AAAACTCATAAAATAAATTGAATATTTAAAAATTAATTTAATATGAATTCAATAA
1 AAAAAATTCTAAAACTCATAAAATAAATTGAATTTTTAAAAA-TGATTTAATATGAATT-AAAAA
* * * * *
2080841 A-AATATAT-AATGAATTTTAAAAATTTTAAACTGAGAAAAATTCAACTGGAGAAATTTATGAAG
64 ATAATATTTGAA-GAATTTTAAAAA-TATAAACTTAGAAAAATCCAACTAGAGAAATTTATGAAG
* *
2080904 TAGAAAACTCCATATCTTAGTATC
127 TAGAAAACTCCACATCTGAGTATC
* * * * *
2080928 AAAAAATTTTAAAACTCATAAAATAAATTAAATTTTTTTAAAATGATTTAATAGGAATTAAACAA
1 AAAAAATTCTAAAACTCATAAAATAAATTGAA-TTTTTAAAAATGATTTAATATGAATTAAAAAA
* *
2080993 TAATATTTGAAGAATTTT-AAAATAATAAACTTAGAAAAATCCTATTAGAGAAATTTAT-AGAGT
65 TAATATTTGAAGAATTTTAAAAAT-ATAAACTTAGAAAAATCCAACTAGAGAAATTTATGA-AGT
* *
2081056 AGAAAACTCCACATGTCGATTA-C
128 AGAAAACTCCACATCT-GAGTATC
*
2081079 AAGAAAAATTCTAAAACTCATAAAATAAATTGAATTTTTCAAAAGTGATTTAATATGAATTAAAA
1 -A-AAAAATTCTAAAACTCATAAAATAAATTGAATTTTT-AAAAATGATTTAATATGAATTAAAA
* *
2081144 AATATTATTTGAAGAATTTTGAAAACTATAAACTTAGAAAAA
63 AATAATATTTGAAGAATTTT-AAAAATATAAACTTAGAAAAA
2081186 AATCAATTTA
Statistics
Matches: 218, Mismatches: 28, Indels: 21
0.82 0.10 0.08
Matches are distributed among these distances:
150 2 0.01
151 61 0.28
152 57 0.26
153 79 0.36
154 15 0.07
155 4 0.02
ACGTcount: A:0.52, C:0.07, G:0.09, T:0.33
Consensus pattern (150 bp):
AAAAAATTCTAAAACTCATAAAATAAATTGAATTTTTAAAAATGATTTAATATGAATTAAAAAAT
AATATTTGAAGAATTTTAAAAATATAAACTTAGAAAAATCCAACTAGAGAAATTTATGAAGTAGA
AAACTCCACATCTGAGTATC
Found at i:2081408 original size:190 final size:192
Alignment explanation
Indices: 2081080--2081437 Score: 612
Period size: 190 Copynumber: 1.9 Consensus size: 192
2081070 GTCGATTACA
* * *
2081080 AGAAAAATTCTAAAACTCATAAAATAAATTGAATTTTTCAAAAGTGATTTAATATGAATTAAAAA
1 AGAAAAATTCTAAAACTCATAAAATAAATTAAAATTTTCAAAACTGATTTAATATGAATTAAAAA
*
2081145 ATATTATTTGAAGAATTTTGAAAACTATAAACTTAGAAAAAAATCAATTTATTTTAATTAGTAAG
66 ATATTATTTGAAGAATTTAGAAAACTATAAACTTAGAAAAAAATCAATTTATTTTAATTAGTAAG
2081210 AATTCATGATATAATAAAAAATTCAAAATTAATTAGTATAGAAAACTTCGTATCTCGGTAAT
131 AATTCATGATATAATAAAAAATTCAAAATTAATTAGTATAGAAAACTTCGTATCTCGGTAAT
* *
2081272 AGAAAAATTCTAAAACTCATAAAATAAATTAAAATTTTCTAAACTGA-TTAATATGAATTAAACA
1 AGAAAAATTCTAAAACTCATAAAATAAATTAAAATTTTCAAAACTGATTTAATATGAATTAAAAA
* * *
2081336 ATATTATTTGAAGAATTTAGAAAATTATAAAGTTAG-AACAAATCAATTTATTTTAATTAGTAAG
66 ATATTATTTGAAGAATTTAGAAAACTATAAACTTAGAAAAAAATCAATTTATTTTAATTAGTAAG
*
2081400 AATTCATGATATAATGAAAAATTCAAAATTAATTAGTA
131 AATTCATGATATAATAAAAAATTCAAAATTAATTAGTA
2081438 AATTTGACAA
Statistics
Matches: 156, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
190 64 0.41
191 49 0.31
192 43 0.28
ACGTcount: A:0.50, C:0.06, G:0.08, T:0.35
Consensus pattern (192 bp):
AGAAAAATTCTAAAACTCATAAAATAAATTAAAATTTTCAAAACTGATTTAATATGAATTAAAAA
ATATTATTTGAAGAATTTAGAAAACTATAAACTTAGAAAAAAATCAATTTATTTTAATTAGTAAG
AATTCATGATATAATAAAAAATTCAAAATTAATTAGTATAGAAAACTTCGTATCTCGGTAAT
Found at i:2084008 original size:13 final size:13
Alignment explanation
Indices: 2083990--2084015 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2083980 CAATTTTTTG
2083990 TGTATCGATACAT
1 TGTATCGATACAT
2084003 TGTATCGATACAT
1 TGTATCGATACAT
2084016 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2084754 original size:21 final size:21
Alignment explanation
Indices: 2084713--2084756 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
2084703 CTCTCCTTTA
* *
2084713 TCTCCCCCATTTATTAATAAT
1 TCTCCCCCATTAATCAATAAT
2084734 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCATTAATCAA-TAAT
2084755 TC
1 TC
2084757 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.27, C:0.32, G:0.02, T:0.39
Consensus pattern (21 bp):
TCTCCCCCATTAATCAATAAT
Found at i:2086418 original size:21 final size:21
Alignment explanation
Indices: 2086394--2086440 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
2086384 TTTGATGCTG
2086394 ATTTTG-A-TGAAAAACGAAGT
1 ATTTTGAAGTGAAAAAC-AAGT
2086414 -TATTTGAAGTGAAAAACAAGT
1 AT-TTTGAAGTGAAAAACAAGT
2086435 ATTTTG
1 ATTTTG
2086441 CAAAAGATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
19 1 0.04
20 4 0.17
21 9 0.39
22 9 0.39
ACGTcount: A:0.43, C:0.04, G:0.19, T:0.34
Consensus pattern (21 bp):
ATTTTGAAGTGAAAAACAAGT
Found at i:2086579 original size:13 final size:13
Alignment explanation
Indices: 2086561--2086599 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
2086551 ATAATCACCC
2086561 TGTATCGATACAA
1 TGTATCGATACAA
2086574 TGTATCGATACAA
1 TGTATCGATACAA
2086587 TGTATCGATACAA
1 TGTATCGATACAA
2086600 AGAAAAATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2088703 original size:15 final size:15
Alignment explanation
Indices: 2088683--2088713 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2088673 ATTTCGTTTG
*
2088683 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
2088698 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
2088713 G
1 G
2088714 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:2090546 original size:21 final size:21
Alignment explanation
Indices: 2090517--2090561 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
2090507 AAGTTTTCAT
*
2090517 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
2090537 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
2090559 TTT
1 TTT
2090562 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:2095684 original size:16 final size:17
Alignment explanation
Indices: 2095655--2095703 Score: 66
Period size: 15 Copynumber: 2.9 Consensus size: 17
2095645 AAGGTTATAT
2095655 TTATTCATTTTATTTTAA
1 TTATT-ATTTTATTTTAA
2095673 TTATTA-TTTA-TTTAA
1 TTATTATTTTATTTTAA
*
2095688 TTTTTATTTTATTTTA
1 TTATTATTTTATTTTA
2095704 TTAAAAAAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 10 0.36
16 8 0.29
17 5 0.18
18 5 0.18
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (17 bp):
TTATTATTTTATTTTAA
Found at i:2095686 original size:15 final size:16
Alignment explanation
Indices: 2095655--2095706 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
2095645 AAGGTTATAT
2095655 TTATTCATTTTATTTTAA
1 TTATT-ATTTTA-TTTAA
2095673 TTATTA-TTTATTTAA
1 TTATTATTTTATTTAA
* *
2095688 TTTTTATTTTATTTTA
1 TTATTATTTTATTTAA
2095704 TTA
1 TTA
2095707 AAAAAACCAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
15 10 0.33
16 14 0.47
17 1 0.03
18 5 0.17
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (16 bp):
TTATTATTTTATTTAA
Found at i:2095705 original size:21 final size:21
Alignment explanation
Indices: 2095655--2095701 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
2095645 AAGGTTATAT
* *
2095655 TTATTCATTTTATTTTAATTA
1 TTATTTATTTAATTTTAATTA
*
2095676 TTATTTATTTAATTTTTATT-
1 TTATTTATTTAATTTTAATTA
2095696 TTATTT
1 TTATTT
2095702 TATTAAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (21 bp):
TTATTTATTTAATTTTAATTA
Found at i:2097794 original size:22 final size:23
Alignment explanation
Indices: 2097755--2097819 Score: 71
Period size: 22 Copynumber: 2.8 Consensus size: 23
2097745 TTCGGGAAAA
* *
2097755 TAAATGAATTTTTTAAAACTGAT-T
1 TAAATGAA--TTTTAAAAATAATAT
2097779 TAATATGAA-TTTAAAAATAATAT
1 TAA-ATGAATTTTAAAAATAATAT
2097802 TAAATGAATTTTAAAAAT
1 TAAATGAATTTTAAAAAT
2097820 TTTAAACCGA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
22 15 0.42
23 13 0.36
24 3 0.08
25 5 0.14
ACGTcount: A:0.51, C:0.02, G:0.06, T:0.42
Consensus pattern (23 bp):
TAAATGAATTTTAAAAATAATAT
Found at i:2097950 original size:139 final size:141
Alignment explanation
Indices: 2097691--2097952 Score: 309
Period size: 139 Copynumber: 1.9 Consensus size: 141
2097681 ATATTTATGG
** * ** * *
2097691 AATAGAAAACTCGGTTTTTCGAGAATAGGAAAATTTTAAGGAAAAAATAAAAAATTCGGGAAAAT
1 AATAGAAAACTCAATTTTTCGAAAATAAAAAAATTTTAAGGAAAAAATAAAAAACTCAGGAAAAT
* * * *
2097756 AAATGAATTTTTTAAAACTGATTTAATATGAATTTAAAAATAATATTAAATGAATTTTAAAAATT
66 AAATGAAATTTTCAAAACTAATTTAATATGAATTTAAAAATAACATTAAATGAATTTTAAAAATT
2097821 TTAAACCGAGA
131 TTAAACCGAGA
* * *
2097832 AATAGAAAACTCAATTTTTTGAAAATAAAAAAATTTTAA-G-AAAAATGAAAAACTCATGAAAAT
1 AATAGAAAACTCAATTTTTCGAAAATAAAAAAATTTTAAGGAAAAAATAAAAAACTCAGGAAAAT
* * *
2097895 AATTGAAATTTTCAAAACTAATTTAGT-GGTAA-TTAAATAATAACATTTAAA-GAATTTT
66 AAATGAAATTTTCAAAACTAATTTAATATG-AATTTAAA-AATAACA-TTAAATGAATTTT
2097953 GACGTTAAAA
Statistics
Matches: 101, Mismatches: 17, Indels: 8
0.80 0.13 0.06
Matches are distributed among these distances:
138 6 0.06
139 56 0.55
140 6 0.06
141 33 0.33
ACGTcount: A:0.52, C:0.05, G:0.11, T:0.32
Consensus pattern (141 bp):
AATAGAAAACTCAATTTTTCGAAAATAAAAAAATTTTAAGGAAAAAATAAAAAACTCAGGAAAAT
AAATGAAATTTTCAAAACTAATTTAATATGAATTTAAAAATAACATTAAATGAATTTTAAAAATT
TTAAACCGAGA
Found at i:2099450 original size:24 final size:24
Alignment explanation
Indices: 2099371--2099450 Score: 60
Period size: 24 Copynumber: 3.2 Consensus size: 24
2099361 GAAAAGTCAT
*
2099371 ATTTTTACCCAGATGTATCGATAA
1 ATTTTTACCCAGATGTATCGATAC
*
2099395 ATTTTT---CA-ATCTATCGATACATTC
1 ATTTTTACCCAGATGTATCGAT--A--C
2099419 TATCTTTTACCCAGATGTATCGATAC
1 -AT-TTTTACCCAGATGTATCGATAC
2099445 ATTTTT
1 ATTTTT
2099451 CAATGTATTG
Statistics
Matches: 43, Mismatches: 3, Indels: 20
0.65 0.05 0.30
Matches are distributed among these distances:
20 9 0.21
21 2 0.05
22 1 0.02
24 10 0.23
25 4 0.09
26 5 0.12
28 1 0.02
29 2 0.05
30 9 0.21
ACGTcount: A:0.29, C:0.19, G:0.09, T:0.44
Consensus pattern (24 bp):
ATTTTTACCCAGATGTATCGATAC
Found at i:2099694 original size:21 final size:21
Alignment explanation
Indices: 2099668--2099724 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
2099658 AAATTATCCA
*
2099668 AATGTATCGATACATTTTTAG
1 AATGTATCGATACATTTGTAG
*
2099689 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
2099710 AATGTATCGATACAT
1 AATGTATCGATACAT
2099725 CCTACAAATG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.39
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:2099804 original size:19 final size:19
Alignment explanation
Indices: 2099780--2099911 Score: 129
Period size: 19 Copynumber: 7.9 Consensus size: 19
2099770 AATTCAACAA
2099780 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
2099799 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
2099814 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
2099831 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
2099846 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
2099863 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
2099878 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
2099895 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
2099912 TTAGCTACTA
Statistics
Matches: 95, Mismatches: 0, Indels: 36
0.73 0.00 0.27
Matches are distributed among these distances:
13 33 0.35
15 6 0.06
17 6 0.06
19 50 0.53
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:2099819 original size:13 final size:13
Alignment explanation
Indices: 2099801--2099889 Score: 70
Period size: 13 Copynumber: 5.9 Consensus size: 13
2099791 ACATAAGTTT
2099801 TGTATCGATACAA
1 TGTATCGATACAA
2099814 TGTATCGATACATAA
1 TGTATCGATAC--AA
2099829 GTTTTGTATCGATACAA
1 ----TGTATCGATACAA
2099846 TGTATCGATACATAA
1 TGTATCGATAC--AA
2099861 GTTTTGTATCGATACAA
1 ----TGTATCGATACAA
2099878 TGTATCGATACA
1 TGTATCGATACA
2099890 TAAGTATTGT
Statistics
Matches: 64, Mismatches: 0, Indels: 24
0.73 0.00 0.27
Matches are distributed among these distances:
13 34 0.53
15 4 0.06
17 4 0.06
19 22 0.34
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2099823 original size:32 final size:32
Alignment explanation
Indices: 2099782--2099908 Score: 245
Period size: 32 Copynumber: 4.0 Consensus size: 32
2099772 TTCAACAATT
2099782 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTTTTGTATCGATACAA
2099814 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTTTTGTATCGATACAA
2099846 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTTTTGTATCGATACAA
*
2099878 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTTTTGTATCGATACA
2099909 TAATTAGCTA
Statistics
Matches: 94, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
32 94 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTTTTGTATCGATACAA
Found at i:2099969 original size:13 final size:13
Alignment explanation
Indices: 2099951--2099976 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2099941 CATTTTTCTG
2099951 TGTATCGATACAT
1 TGTATCGATACAT
2099964 TGTATCGATACAT
1 TGTATCGATACAT
2099977 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2099973 original size:33 final size:33
Alignment explanation
Indices: 2099931--2099997 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2099921 ACCAAGGAAA
***
2099931 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
2099964 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
2099997 T
1 T
2099998 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:2102397 original size:51 final size:52
Alignment explanation
Indices: 2102336--2102458 Score: 151
Period size: 51 Copynumber: 2.3 Consensus size: 52
2102326 AATTCTCCAC
* * *
2102336 AATCGGGGATATTCCAACTCCGATTTTATTTTC-AAAACACTAATTTTCTAT
1 AATCAGGGATACTCCAACTCCGATTTTATTTCCAAAAACACTAATTTTCTAT
* *
2102387 AATCAGGGATACTCTAACTCCGATTTTATTTCCAAAAAACACTAA-TTTCTTCAC
1 AATCAGGGATACTCCAACTCCGATTTTATTTCC-AAAAACACTAATTTTC-T-AT
*
2102441 AATCGGGGATACTCCAAC
1 AATCAGGGATACTCCAAC
2102459 CCCATTAATC
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
51 29 0.48
52 4 0.07
53 11 0.18
54 17 0.28
ACGTcount: A:0.33, C:0.23, G:0.11, T:0.33
Consensus pattern (52 bp):
AATCAGGGATACTCCAACTCCGATTTTATTTCCAAAAACACTAATTTTCTAT
Found at i:2102512 original size:28 final size:27
Alignment explanation
Indices: 2102445--2102513 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 27
2102435 CTTCACAATC
**
2102445 GGGGATACTCCAACCCCATTAATCATC
1 GGGGATACTCCAACCCCATTAATCAGA
* * *
2102472 GGGGATACTCCAACCCCGTTATTTCCGA
1 GGGGATACTCCAACCCCATTA-ATCAGA
2102500 GGGGATACTCCAAC
1 GGGGATACTCCAAC
2102514 TCCGGTTTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 20 0.56
28 16 0.44
ACGTcount: A:0.26, C:0.32, G:0.20, T:0.22
Consensus pattern (27 bp):
GGGGATACTCCAACCCCATTAATCAGA
Found at i:2102594 original size:51 final size:51
Alignment explanation
Indices: 2102500--2102667 Score: 146
Period size: 52 Copynumber: 3.3 Consensus size: 51
2102490 TTATTTCCGA
* *
2102500 GGGGATACTCCAACTCC-GGTTTTA--TCGCTAAACACTAATTTTTCCACAATC
1 GGGGATACTCCAA-TCCTGGTTTTATTTC-CAAAACACCAA-TTTTCCACAATC
* * ** *
2102551 GGGGATACTCCAATCCTGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATT
1 GGGGATACTCCAATCCTGGTTTTATTTCCAAAACACCAATTTTCC-ACAATC
* * * *
2102603 GGGGATACTCCAA-CTTCGATTTTATTTCCAAAAATACCAATTTTTCACAATC
1 GGGGATACTCCAATCCT-GGTTTTATTTCC-AAAACACCAATTTTCCACAATC
*
2102655 GAGGATACTCCAA
1 GGGGATACTCCAA
2102668 CCTCGTTATT
Statistics
Matches: 94, Mismatches: 17, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
50 3 0.03
51 28 0.30
52 49 0.52
53 14 0.15
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.34
Consensus pattern (51 bp):
GGGGATACTCCAATCCTGGTTTTATTTCCAAAACACCAATTTTCCACAATC
Found at i:2102695 original size:211 final size:211
Alignment explanation
Indices: 2102331--2102718 Score: 586
Period size: 211 Copynumber: 1.8 Consensus size: 211
2102321 TTATCAATTC
* *
2102331 TCCACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCAGGGA
1 TCCACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCAGGGA
* *
2102396 TACTCTAACTCCGATTTTATTTCCAAAAAACACTAATTTCTTCACAATCGGGGATACTCCAACCC
66 TACTCCAACTCCGATTTTATTTCCAAAAAACACTAATTTCTTCACAATCGAGGATACTCCAACCC
*
2102461 CATTAATCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACTCCGGTTTTATC
131 CATTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACTCCGGTTTTATC
2102526 GCTAAACACTAATTTT
196 GCTAAACACTAATTTT
* * * **
2102542 TCCACAATCGGGGATACTCCAA-TCCTGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATTGGG
1 TCCACAATCGGGGATACTCCAACTCC-GATTTTATTTTCAAAACACCAATTTT-CTATAATCAGG
*
2102606 GATACTCCAACTTCGATTTTATTTCCAAAAATAC-C-AATTT-TTCACAATCGAGGATACTCCAA
64 GATACTCCAACTCCGATTTTATTTCCAAAAA-ACACTAATTTCTTCACAATCGAGGATACTCCAA
* * *
2102668 CCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATAC
128 CCCCATTA-ATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATAC
2102719 GACAACCCCG
Statistics
Matches: 159, Mismatches: 14, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
210 30 0.19
211 89 0.56
212 38 0.24
213 2 0.01
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (211 bp):
TCCACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCAGGGA
TACTCCAACTCCGATTTTATTTCCAAAAAACACTAATTTCTTCACAATCGAGGATACTCCAACCC
CATTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACTCCGGTTTTATC
GCTAAACACTAATTTT
Found at i:2102714 original size:28 final size:28
Alignment explanation
Indices: 2102657--2102728 Score: 81
Period size: 28 Copynumber: 2.6 Consensus size: 28
2102647 TCACAATCGA
* * **
2102657 GGATACTCCAACCTCGTTATTTCATCGG
1 GGATACTCCAACCCCGTTACTTCAGAGG
*
2102685 GGATACTCCAACCCCGTTACTTCCGAGG
1 GGATACTCCAACCCCGTTACTTCAGAGG
**
2102713 GGATACGACAACCCCG
1 GGATACTCCAACCCCG
2102729 GCTTTATTCC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.24, C:0.33, G:0.21, T:0.22
Consensus pattern (28 bp):
GGATACTCCAACCCCGTTACTTCAGAGG
Found at i:2102769 original size:211 final size:211
Alignment explanation
Indices: 2102328--2102775 Score: 564
Period size: 211 Copynumber: 2.1 Consensus size: 211
2102318 AGTTTATCAA
* * *
2102328 TTCTCCACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCAG
1 TTCTCCACAATCAGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCAG
* *
2102393 GGATACTCTAACTCCGATTTTATTTCCAAAAAACACTAATTTCTTCACAATCGGGGATACTCCAA
66 GGATACTCCAACTCCGATTTTATTTCCAAAAAACACTAATTTCTTCACAATCGAGGATACTCCAA
* ** * *
2102458 CCCCATTAATCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACTCCGGTTTT
131 CCCCATTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACGACAACCCCGGCTTT
* *
2102523 ATCGCTAAACACTAAT
196 ATCCCAAAACACTAAT
* * * * * *
2102539 TTTTCCACAATCGGGGATACTCCAA-TCCTGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATT
1 TTCTCCACAATCAGGGATACTCCAACTCC-GATTTTATTTTCAAAACACCAATTTT-CTATAATC
* *
2102603 GGGGATACTCCAACTTCGATTTTATTTCCAAAAATAC-C-AATTT-TTCACAATCGAGGATACTC
64 AGGGATACTCCAACTCCGATTTTATTTCCAAAAA-ACACTAATTTCTTCACAATCGAGGATACTC
* * *
2102665 CAACCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACGACAACCCCGG
128 CAACCCCATTA-ATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACGACAACCCCGG
* * *
2102730 CTTTATTCCCAAAATATTGAT
192 CTTTA-TCCCAAAACACTAAT
* *
2102751 TTCT-CATAATTAGGGATACTCCAAC
1 TTCTCCACAATCAGGGATACTCCAAC
2102776 CCCGTTATTT
Statistics
Matches: 203, Mismatches: 28, Indels: 11
0.84 0.12 0.05
Matches are distributed among these distances:
210 30 0.15
211 120 0.59
212 51 0.25
213 2 0.01
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (211 bp):
TTCTCCACAATCAGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCAG
GGATACTCCAACTCCGATTTTATTTCCAAAAAACACTAATTTCTTCACAATCGAGGATACTCCAA
CCCCATTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACGACAACCCCGGCTTT
ATCCCAAAACACTAAT
Found at i:2103966 original size:21 final size:21
Alignment explanation
Indices: 2103924--2103966 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
2103914 TTTTACCCAG
* **
2103924 ATGTATCGATACATTTTTTTA
1 ATGTATCGATACATCTAGTTA
2103945 ATGTATCGATACATCTAGTTA
1 ATGTATCGATACATCTAGTTA
2103966 A
1 A
2103967 AATTAAGCAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.44
Consensus pattern (21 bp):
ATGTATCGATACATCTAGTTA
Found at i:2104886 original size:20 final size:19
Alignment explanation
Indices: 2104849--2104894 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
2104839 AGCCTTTGAT
2104849 CATGCATTTTTACTATGTTC
1 CATGCATTTTTACTATG-TC
2104869 CATGCATTTTTAAC-ATGTC
1 CATGCATTTTT-ACTATGTC
2104888 CA-GCATT
1 CATGCATT
2104895 CATTGAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.20
19 4 0.16
20 14 0.56
21 2 0.08
ACGTcount: A:0.24, C:0.22, G:0.11, T:0.43
Consensus pattern (19 bp):
CATGCATTTTTACTATGTC
Found at i:2108196 original size:20 final size:21
Alignment explanation
Indices: 2108152--2108205 Score: 83
Period size: 20 Copynumber: 2.6 Consensus size: 21
2108142 TTCTATTATT
* *
2108152 TGTATCGATACAAACAGTGAA
1 TGTATCGATACATACAGTAAA
2108173 TGTATCGATACATA-AGTAAA
1 TGTATCGATACATACAGTAAA
2108193 TGTATCGATACAT
1 TGTATCGATACAT
2108206 GGTCCCAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 18 0.58
21 13 0.42
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.30
Consensus pattern (21 bp):
TGTATCGATACATACAGTAAA
Found at i:2108207 original size:89 final size:89
Alignment explanation
Indices: 2108105--2108294 Score: 344
Period size: 89 Copynumber: 2.1 Consensus size: 89
2108095 TGAAAGGCAC
** *
2108105 GTATCGATACATGGTCCCAAGGTTAAAAATTTCAAATTTCTATTATTTGTATCGATACAAACAGT
1 GTATCGATACATGGTCCCAAGGTTAAAAATTTCAAATTTCTAAAATTTGTATCGATACAAACAAT
2108170 GAATGTATCGATACATAAGTAAAT
66 GAATGTATCGATACATAAGTAAAT
2108194 GTATCGATACATGGTCCCAAGGTTAAAAATTTCAAATTTCTAAAATTTGTATCGATACAAACAAT
1 GTATCGATACATGGTCCCAAGGTTAAAAATTTCAAATTTCTAAAATTTGTATCGATACAAACAAT
2108259 GAATGTATCGATACATAAGTAAAT
66 GAATGTATCGATACATAAGTAAAT
*
2108283 GTATCTATACAT
1 GTATCGATACAT
2108295 ATCTGAAATA
Statistics
Matches: 97, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
89 97 1.00
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.33
Consensus pattern (89 bp):
GTATCGATACATGGTCCCAAGGTTAAAAATTTCAAATTTCTAAAATTTGTATCGATACAAACAAT
GAATGTATCGATACATAAGTAAAT
Found at i:2108411 original size:32 final size:32
Alignment explanation
Indices: 2108374--2108453 Score: 142
Period size: 32 Copynumber: 2.5 Consensus size: 32
2108364 CATTTTTCAT
*
2108374 TGTATCAATACATTCTAGGTTTTTAACCCAAA
1 TGTATCGATACATTCTAGGTTTTTAACCCAAA
*
2108406 TGTATCGATACATTCTGGGTTTTTAACCCAAA
1 TGTATCGATACATTCTAGGTTTTTAACCCAAA
2108438 TGTATCGATACATTCT
1 TGTATCGATACATTCT
2108454 TCAATGTATT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 46 1.00
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.39
Consensus pattern (32 bp):
TGTATCGATACATTCTAGGTTTTTAACCCAAA
Found at i:2111486 original size:13 final size:12
Alignment explanation
Indices: 2111468--2111499 Score: 55
Period size: 13 Copynumber: 2.6 Consensus size: 12
2111458 AAGAAAAAGA
2111468 AAAAAAATAGAGG
1 AAAAAAATAGA-G
2111481 AAAAAAATAGAG
1 AAAAAAATAGAG
2111493 AAAAAAA
1 AAAAAAA
2111500 GAAAAATCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 8 0.42
13 11 0.58
ACGTcount: A:0.78, C:0.00, G:0.16, T:0.06
Consensus pattern (12 bp):
AAAAAAATAGAG
Found at i:2116747 original size:30 final size:28
Alignment explanation
Indices: 2116680--2116948 Score: 261
Period size: 28 Copynumber: 9.3 Consensus size: 28
2116670 AAATCCTACC
** *
2116680 AGTCAGTGGCACCCTTTAAAAGCTCACA
1 AGTCAGTGGCACCCTTTCGAAGCCCACA
2116708 AGTCAGTGGCACCCTTTCGAAGCCCACATA
1 AGTCAGTGGCACCCTTTCGAAGCCCAC--A
*
2116738 AGTCGGTGGCAACCTCTTTCGAAGCCCACA
1 AGTCAGTGGC-ACC-CTTTCGAAGCCCACA
** * *
2116768 AGTGGGTGGCAACCCCTT-AAAGCCCACACA
1 AGTCAGTGGC-ACCCTTTCGAAG-CC-CACA
** * *
2116798 AGTTGGTGGCAACCTCTCTCAAAGCCCACA
1 AGTCAGTGGC-ACC-CTTTCGAAGCCCACA
*
2116828 AGTCAGTGGCACCTTTTCGAAGCCCACA
1 AGTCAGTGGCACCCTTTCGAAGCCCACA
*
2116856 AGTTAGTGGCACCCTTTCGAAGCCCACA
1 AGTCAGTGGCACCCTTTCGAAGCCCACA
*
2116884 AGTCAGTGGTACCCTTTCGAAGCCCACA
1 AGTCAGTGGCACCCTTTCGAAGCCCACA
* ** ** *
2116912 AGTCAGTAGCATTCTTTTAAAGCCTACA
1 AGTCAGTGGCACCCTTTCGAAGCCCACA
2116940 AGTCAGTGG
1 AGTCAGTGG
2116949 TAACCCTTCT
Statistics
Matches: 206, Mismatches: 27, Indels: 16
0.83 0.11 0.06
Matches are distributed among these distances:
28 120 0.58
29 8 0.04
30 53 0.26
31 7 0.03
32 18 0.09
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.21
Consensus pattern (28 bp):
AGTCAGTGGCACCCTTTCGAAGCCCACA
Found at i:2116770 original size:60 final size:59
Alignment explanation
Indices: 2116699--2116912 Score: 274
Period size: 60 Copynumber: 3.6 Consensus size: 59
2116689 CACCCTTTAA
* *
2116699 AAGCTCACAAGTCAGTGGCACCCTTTCGAAGCCCACATAAGTCGGTGGCAACCTCTTTCG
1 AAGCCCACAAGTCAGTGGCACCCTTTCGAAGCCCACA-AAGTTGGTGGCAACCTCTTTCG
** * * * *
2116759 AAGCCCACAAGTGGGTGGCAACCCCTT-AAAGCCCACACAAGTTGGTGGCAACCTCTCTCA
1 AAGCCCACAAGTCAGTGGC-ACCCTTTCGAAGCCCACA-AAGTTGGTGGCAACCTCTTTCG
* *
2116819 AAGCCCACAAGTCAGTGGCACCTTTTCGAAGCCCAC-AAGTTAGTGGC-ACC-CTTTCG
1 AAGCCCACAAGTCAGTGGCACCCTTTCGAAGCCCACAAAGTTGGTGGCAACCTCTTTCG
*
2116875 AAGCCCACAAGTCAGTGGTACCCTTTCGAAGCCCACAA
1 AAGCCCACAAGTCAGTGGCACCCTTTCGAAGCCCACAA
2116913 GTCAGTAGCA
Statistics
Matches: 132, Mismatches: 19, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
56 38 0.29
57 4 0.03
58 10 0.08
59 5 0.04
60 69 0.52
61 6 0.05
ACGTcount: A:0.27, C:0.33, G:0.21, T:0.19
Consensus pattern (59 bp):
AAGCCCACAAGTCAGTGGCACCCTTTCGAAGCCCACAAAGTTGGTGGCAACCTCTTTCG
Found at i:2121190 original size:21 final size:22
Alignment explanation
Indices: 2121166--2121210 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
2121156 GTTTCGACTA
*
2121166 TTAT-TTGGTTATGATTCTTTT
1 TTATATTGGTTATGAATCTTTT
* *
2121187 TTATATTGTTTATTAATCTTTT
1 TTATATTGGTTATGAATCTTTT
2121209 TT
1 TT
2121211 TTTTACGAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.18, C:0.04, G:0.09, T:0.69
Consensus pattern (22 bp):
TTATATTGGTTATGAATCTTTT
Found at i:2125340 original size:21 final size:21
Alignment explanation
Indices: 2125302--2125343 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2125292 CTTAATTAAT
* **
2125302 ATTAACATGTCTTGGATTGGG
1 ATTAACATGGCTCAGATTGGG
2125323 ATTAACATGGCTCAGATTGGG
1 ATTAACATGGCTCAGATTGGG
2125344 CCCCGAATCG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.26, C:0.12, G:0.29, T:0.33
Consensus pattern (21 bp):
ATTAACATGGCTCAGATTGGG
Found at i:2132753 original size:26 final size:26
Alignment explanation
Indices: 2132706--2132762 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
2132696 TAGACTTTGT
* * **
2132706 ATCATGCAACCATGATAGCATTCCAC
1 ATCATGCAACCATAATACCATTAAAC
**
2132732 ATCATGCATTCATAATACCATTAAAC
1 ATCATGCAACCATAATACCATTAAAC
2132758 ATCAT
1 ATCAT
2132763 TATTTTTATA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.39, C:0.26, G:0.07, T:0.28
Consensus pattern (26 bp):
ATCATGCAACCATAATACCATTAAAC
Found at i:2133010 original size:26 final size:26
Alignment explanation
Indices: 2132938--2133011 Score: 66
Period size: 26 Copynumber: 2.8 Consensus size: 26
2132928 TCAAGAAATG
*
2132938 TTTT-TCAAGAAATTATCGTCAAAAAC
1 TTTTGTCAAG-AATTTTCGTCAAAAAC
*
2132964 TTTTGTCGAA-AATGTTT-GTCAGAAAC
1 TTTTGTC-AAGAAT-TTTCGTCAAAAAC
2132990 -TTTGTCAAGATATTTTCGTCAA
1 TTTTGTCAAGA-ATTTTCGTCAA
2133012 TATGACCTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 12
0.72 0.06 0.22
Matches are distributed among these distances:
24 2 0.05
25 10 0.26
26 21 0.54
27 4 0.10
28 2 0.05
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.39
Consensus pattern (26 bp):
TTTTGTCAAGAATTTTCGTCAAAAAC
Found at i:2133055 original size:28 final size:28
Alignment explanation
Indices: 2133021--2133381 Score: 269
Period size: 28 Copynumber: 12.5 Consensus size: 28
2133011 ATATGACCTT
*
2133021 TTTCAAAGCCCA-AGAGTCAGTGGCATCC
1 TTTCAAAGCCCACA-AGTCAGTGGCACCC
** * * * *
2133049 TTTCAAAATTCTACCAGTTAGTGGTACCC
1 TTTC-AAAGCCCACAAGTCAGTGGCACCC
* * *
2133078 TTTAAAAGCCCACAAATCAGTTGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
2133106 TTTCAAAGCCCACACAAGTCAGTGGCAACCTC
1 TTTCAAAG-CC-CACAAGTCAGTGGC-ACC-C
* *
2133138 TCTCAAAGCCCACAAGTCGGTGGCAACCTC
1 TTTCAAAGCCCACAAGTCAGTGGC-ACC-C
* * * *
2133168 TCTCAAAGCCTACAAGTCAGTGACACCA
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * *
2133196 TTTC-AAGCCCACAAGTTAGTAGAACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * * *
2133223 TTTCGAAGCCCCCAAGTCAATGGCAACC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
2133251 TTTCGAAGCCCACAAGTTAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * *
2133279 TTTCGAAGCCCACAAATCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
2133307 TTTTAAAGCCTACAAGTCAGTGGCAACCC
1 TTTCAAAGCCCACAAGTCAGTGGC-ACCC
* ** *
2133336 -ATCTAAAGCCCACACAAGTTGGTGGCAACC
1 TTTC-AAAG-CC-CACAAGTCAGTGGCACCC
2133366 TTCTCTAAAGCCCACA
1 TT-TC-AAAGCCCACA
2133382 CAAATTAGTG
Statistics
Matches: 263, Mismatches: 57, Indels: 24
0.76 0.17 0.07
Matches are distributed among these distances:
27 21 0.08
28 117 0.44
29 31 0.12
30 61 0.23
31 18 0.07
32 15 0.06
ACGTcount: A:0.30, C:0.32, G:0.17, T:0.21
Consensus pattern (28 bp):
TTTCAAAGCCCACAAGTCAGTGGCACCC
Found at i:2133361 original size:31 final size:30
Alignment explanation
Indices: 2133325--2133399 Score: 105
Period size: 32 Copynumber: 2.4 Consensus size: 30
2133315 CCTACAAGTC
*
2133325 AGTGGCAACCCATCTAAAGCCCACACAAGTT
1 AGTGGCAACCC-TCTAAAGCCCACACAAATT
*
2133356 GGTGGCAACCTTCTCTAAAGCCCACACAAATT
1 AGTGGCAACC--CTCTAAAGCCCACACAAATT
2133388 AGTGGCAACCCT
1 AGTGGCAACCCT
2133400 TTTAAACCCA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
30 2 0.05
31 9 0.23
32 27 0.69
33 1 0.03
ACGTcount: A:0.32, C:0.32, G:0.17, T:0.19
Consensus pattern (30 bp):
AGTGGCAACCCTCTAAAGCCCACACAAATT
Found at i:2134306 original size:20 final size:20
Alignment explanation
Indices: 2134281--2134354 Score: 105
Period size: 20 Copynumber: 3.7 Consensus size: 20
2134271 TACCTAAATA
2134281 TATCGATACATTCTTCAATG
1 TATCGATACATTCTTCAATG
* *
2134301 TATCGATACATGT-ATGAATG
1 TATCGATACAT-TCTTCAATG
2134321 TATCGATACATTCTTCAATG
1 TATCGATACATTCTTCAATG
*
2134341 TATCAATACATTCT
1 TATCGATACATTCT
2134355 GTCTTTTTAC
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
19 1 0.02
20 45 0.96
21 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.39
Consensus pattern (20 bp):
TATCGATACATTCTTCAATG
Found at i:2139828 original size:20 final size:20
Alignment explanation
Indices: 2139795--2139834 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
2139785 TATTTTTATT
2139795 TAAATTTAATTATAAAAATA
1 TAAATTTAATTATAAAAATA
2139815 TAAATATTAA-TATAAAAATA
1 TAAAT-TTAATTATAAAAATA
2139835 ATAATTAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
TAAATTTAATTATAAAAATA
Found at i:2139867 original size:14 final size:14
Alignment explanation
Indices: 2139805--2139869 Score: 55
Period size: 14 Copynumber: 4.7 Consensus size: 14
2139795 TAAATTTAAT
* *
2139805 TATAAAAATATAAA
1 TATATAAATAAAAA
2139819 TAT-TAATATAAAAA
1 TATATAA-ATAAAAA
*
2139833 TA-ATAATTAAATAA
1 TATATAAATAAA-AA
*
2139847 T-TTTAAATAAAAA
1 TATATAAATAAAAA
2139860 TATATAAATA
1 TATATAAATA
2139870 TGGTATAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
13 9 0.22
14 31 0.77
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
TATATAAATAAAAA
Found at i:2139867 original size:49 final size:49
Alignment explanation
Indices: 2139799--2139911 Score: 124
Period size: 49 Copynumber: 2.3 Consensus size: 49
2139789 TTTATTTAAA
*
2139799 TTTAATTATAAAAATATAAATATTAATATAAAAATAATA-ATTAA-ATAAT
1 TTTAAATATAAAAATATAAATA-TAATAT-AAAATAATATATTAACATAAT
** *
2139848 TTTAAATA-AAAATATATAAATATGGTATAAAATAATATATTAACATTAT
1 TTTAAATATAAAA-ATATAAATATAATATAAAATAATATATTAACATAAT
*
2139897 TATAAATAGTAAAAA
1 TTTAAATA-TAAAAA
2139912 AAAAACCTCG
Statistics
Matches: 54, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
47 9 0.17
48 13 0.24
49 27 0.50
50 1 0.02
51 4 0.07
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.37
Consensus pattern (49 bp):
TTTAAATATAAAAATATAAATATAATATAAAATAATATATTAACATAAT
Found at i:2141376 original size:13 final size:13
Alignment explanation
Indices: 2141358--2141383 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2141348 TACAGCAAGT
2141358 ATGTATCGATACA
1 ATGTATCGATACA
2141371 ATGTATCGATACA
1 ATGTATCGATACA
2141384 TAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2145468 original size:15 final size:15
Alignment explanation
Indices: 2145448--2145478 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2145438 TAAAAATGTC
*
2145448 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
2145463 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
2145478 C
1 C
2145479 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:2147575 original size:13 final size:13
Alignment explanation
Indices: 2147557--2147582 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2147547 ACATTTTTCT
2147557 TTGTATCGATACA
1 TTGTATCGATACA
2147570 TTGTATCGATACA
1 TTGTATCGATACA
2147583 GGGTGATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2150155 original size:13 final size:13
Alignment explanation
Indices: 2150137--2150162 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2150127 TACAGCAAGT
2150137 ATGTATCGATACA
1 ATGTATCGATACA
2150150 ATGTATCGATACA
1 ATGTATCGATACA
2150163 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2151721 original size:25 final size:26
Alignment explanation
Indices: 2151691--2151749 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
2151681 ATAAATATAA
* *
2151691 TATAAATTATTTAACGTA-TTAAAAT
1 TATAAATTATATAACATATTTAAAAT
* *
2151716 TTTAAATT-TATATCATATTTAAAAT
1 TATAAATTATATAACATATTTAAAAT
2151741 TATAAATTA
1 TATAAATTA
2151750 CTGCACTACT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
24 6 0.22
25 21 0.78
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.47
Consensus pattern (26 bp):
TATAAATTATATAACATATTTAAAAT
Found at i:2153624 original size:16 final size:16
Alignment explanation
Indices: 2153600--2153631 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
2153590 TTAATCAAGC
2153600 TTAAATTATTTTAAAT
1 TTAAATTATTTTAAAT
*
2153616 TTAATTTATTTTAAAT
1 TTAAATTATTTTAAAT
2153632 ATAAGGTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TTAAATTATTTTAAAT
Found at i:2154083 original size:15 final size:16
Alignment explanation
Indices: 2154063--2154092 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
2154053 AATTAGTTAA
2154063 ATTCAATTT-TTTTAG
1 ATTCAATTTATTTTAG
2154078 ATTCAATTTATTTTA
1 ATTCAATTTATTTTA
2154093 AATTAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.30, C:0.07, G:0.03, T:0.60
Consensus pattern (16 bp):
ATTCAATTTATTTTAG
Found at i:2154156 original size:16 final size:16
Alignment explanation
Indices: 2154137--2154213 Score: 88
Period size: 15 Copynumber: 4.9 Consensus size: 16
2154127 TTAATTATTT
2154137 ATTTATTTAAATTTAA
1 ATTTATTTAAATTTAA
2154153 ATTT-TTTAAATTTAA
1 ATTTATTTAAATTTAA
* *
2154168 A-TTATTT-TATTCTCA
1 ATTTATTTAAATT-TAA
2154183 ATTTATATTAAATTTAA
1 ATTTAT-TTAAATTTAA
*
2154200 ATTTTTTTAAATTT
1 ATTTATTTAAATTT
2154214 CAATAATAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
14 5 0.10
15 18 0.35
16 16 0.31
17 9 0.18
18 3 0.06
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (16 bp):
ATTTATTTAAATTTAA
Found at i:2154166 original size:46 final size:48
Alignment explanation
Indices: 2154116--2154213 Score: 137
Period size: 46 Copynumber: 2.1 Consensus size: 48
2154106 TAGATATAAT
**
2154116 ATTTAAATTAATTAATTATTTATTTAT-TTAAATTTAAA-TTTTTTAA
1 ATTTAAATTAATTAATTATCAATTTATATTAAATTTAAATTTTTTTAA
* * *
2154162 ATTTAAATTATTTTATTCTCAATTTATATTAAATTTAAATTTTTTTAA
1 ATTTAAATTAATTAATTATCAATTTATATTAAATTTAAATTTTTTTAA
2154210 ATTT
1 ATTT
2154214 CAATAATAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
46 22 0.49
47 11 0.24
48 12 0.27
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (48 bp):
ATTTAAATTAATTAATTATCAATTTATATTAAATTTAAATTTTTTTAA
Found at i:2154533 original size:19 final size:18
Alignment explanation
Indices: 2154509--2154552 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
2154499 TGCATTCTGT
*
2154509 TTATATTTATTTATTTATA
1 TTATATTTAATT-TTTATA
2154528 TTATA-TTAATTTTTATA
1 TTATATTTAATTTTTATA
2154545 TTCATATT
1 TT-ATATT
2154553 ATATCTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 8 0.36
18 8 0.36
19 6 0.27
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (18 bp):
TTATATTTAATTTTTATA
Found at i:2155234 original size:23 final size:23
Alignment explanation
Indices: 2155206--2155256 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
2155196 ATGCTATTTG
*
2155206 ATTTATTTAAATTTTAAATTTAT
1 ATTTATATAAATTTTAAATTTAT
* *
2155229 TTTTATATAAATTTTATATTTAT
1 ATTTATATAAATTTTAAATTTAT
2155252 ATTTA
1 ATTTA
2155257 AATTTTAATA
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:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (23 bp):
ATTTATATAAATTTTAAATTTAT
Found at i:2155248 original size:19 final size:19
Alignment explanation
Indices: 2155226--2155263 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
2155216 ATTTTAAATT
*
2155226 TATTTTTATATAAATTTTA
1 TATTTATATATAAATTTTA
*
2155245 TATTTATATTTAAATTTTA
1 TATTTATATATAAATTTTA
2155264 ATATATTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
TATTTATATATAAATTTTA
Found at i:2155842 original size:21 final size:21
Alignment explanation
Indices: 2155818--2155868 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 21
2155808 AAGTGATAGT
2155818 TTTTTAAAAAAAAT-AAAAAGA
1 TTTTTAAAAAAAATGAAAAA-A
* *
2155839 -TTTTAAAGAAAGATGAATAAA
1 TTTTTAAA-AAAAATGAAAAAA
2155860 TTTTTAAAA
1 TTTTTAAAA
2155869 GAATAGGTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
20 7 0.28
21 7 0.28
22 11 0.44
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.33
Consensus pattern (21 bp):
TTTTTAAAAAAAATGAAAAAA
Found at i:2156107 original size:21 final size:21
Alignment explanation
Indices: 2156022--2156123 Score: 70
Period size: 21 Copynumber: 4.8 Consensus size: 21
2156012 TGATTTATTT
2156022 ATATATTTTT-AAAAA-TTACTC
1 ATAT-TTTTTAAAAAACTT-CTC
* * * *
2156043 ACATTTTGTGAAAAACTTATC
1 ATATTTTTTAAAAAACTTCTC
*
2156064 A-ACTTTTTTAAAAAACCAT-TC
1 ATA-TTTTTTAAAAAA-CTTCTC
2156085 ATATTTTTTAAAAAACTTCTC
1 ATATTTTTTAAAAAACTTCTC
2156106 AT-TTTTCTTATAAAAACT
1 ATATTTT-TTA-AAAAACT
2156124 ATTCGTATAT
Statistics
Matches: 66, Mismatches: 7, Indels: 15
0.75 0.08 0.17
Matches are distributed among these distances:
20 11 0.17
21 43 0.65
22 12 0.18
ACGTcount: A:0.40, C:0.14, G:0.02, T:0.44
Consensus pattern (21 bp):
ATATTTTTTAAAAAACTTCTC
Found at i:2158092 original size:54 final size:54
Alignment explanation
Indices: 2158033--2158136 Score: 172
Period size: 54 Copynumber: 1.9 Consensus size: 54
2158023 AAAATCATTA
* *
2158033 AAAAATCAACGAATCCACGTGGGATGTACTAACGACACAAGTGCATCCCACATG
1 AAAAATCAACAAATCCACGTGGGATGCACTAACGACACAAGTGCATCCCACATG
* *
2158087 AAAAATCAGCAAATCCACGTGGGATGCGCTAACGACACAAGTGCATCCCA
1 AAAAATCAACAAATCCACGTGGGATGCACTAACGACACAAGTGCATCCCA
2158137 TATGGGCACG
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 46 1.00
ACGTcount: A:0.38, C:0.27, G:0.19, T:0.15
Consensus pattern (54 bp):
AAAAATCAACAAATCCACGTGGGATGCACTAACGACACAAGTGCATCCCACATG
Found at i:2159482 original size:7 final size:7
Alignment explanation
Indices: 2159465--2159504 Score: 71
Period size: 7 Copynumber: 5.6 Consensus size: 7
2159455 TAAAGATAAT
2159465 ATAATAAA
1 ATAA-AAA
2159473 ATAAAAA
1 ATAAAAA
2159480 ATAAAAA
1 ATAAAAA
2159487 ATAAAAA
1 ATAAAAA
2159494 ATAAAAA
1 ATAAAAA
2159501 ATAA
1 ATAA
2159505 GAAAGTCTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
7 28 0.88
8 4 0.12
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.17
Consensus pattern (7 bp):
ATAAAAA
Found at i:2161992 original size:20 final size:20
Alignment explanation
Indices: 2161967--2162026 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
2161957 CTGCTAGTTT
2161967 CATGTATCGATACAATTATC
1 CATGTATCGATACAATTATC
* * *
2161987 CATGTATTGATACAATGA-A
1 CATGTATCGATACAATTATC
2162006 CATGTATCGATACAATGTATC
1 CATGTATCGATACAAT-TATC
2162027 GATATAAAGC
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
19 15 0.47
20 17 0.53
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (20 bp):
CATGTATCGATACAATTATC
Found at i:2162011 original size:19 final size:20
Alignment explanation
Indices: 2161967--2162022 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 20
2161957 CTGCTAGTTT
* *
2161967 CATGTATCGATACAATTATC
1 CATGTATCGATACAATGATA
*
2161987 CATGTATTGATACAATGA-A
1 CATGTATCGATACAATGATA
2162006 CATGTATCGATACAATG
1 CATGTATCGATACAATG
2162023 TATCGATATA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 16 0.50
20 16 0.50
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (20 bp):
CATGTATCGATACAATGATA
Done.