Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009623.1 Hibiscus syriacus cultivar Beakdansim tig00117012_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 3488723
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 12 of 18
Found at i:2044344 original size:20 final size:20
Alignment explanation
Indices: 2044306--2044344 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2044296 CAACTTAATT
* *
2044306 TCATGCAAATTTATTAACAC
1 TCATGCAAATTCATGAACAC
2044326 TCATGCAAATTCATGAACA
1 TCATGCAAATTCATGAACA
2044345 AGTAAAAGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.31
Consensus pattern (20 bp):
TCATGCAAATTCATGAACAC
Found at i:2047146 original size:36 final size:35
Alignment explanation
Indices: 2046963--2047147 Score: 208
Period size: 36 Copynumber: 5.1 Consensus size: 35
2046953 TATATATAAT
*
2046963 ATAGTTTTTGAAAATATATAATATATAGTTTTTGGAAA
1 ATAG-TTTTGAAAACATATAATATATAGTTTTT--AAA
* * * *
2047001 CTTATTTTTAAAAAAATATAATATATAGTTTTTTAAA
1 -ATAGTTTTGAAAACATATAATATATAG-TTTTTAAA
** *
2047038 ACGGTTTTGAAAACATATAGTATATAGTTTTTAAA
1 ATAGTTTTGAAAACATATAATATATAGTTTTTAAA
*
2047073 ATAATTTTGGAAAACATATAATATATAGTTTTTAAA
1 ATAGTTTT-GAAAACATATAATATATAGTTTTTAAA
* *
2047109 ATAGTTTTGAAAGCGTATAATATATAGTTTTTGAAA
1 ATAGTTTTGAAAACATATAATATATAGTTTTT-AAA
2047145 ATA
1 ATA
2047148 TATAAATTTT
Statistics
Matches: 125, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
35 35 0.28
36 59 0.47
37 3 0.02
38 21 0.17
39 7 0.06
ACGTcount: A:0.43, C:0.03, G:0.11, T:0.43
Consensus pattern (35 bp):
ATAGTTTTGAAAACATATAATATATAGTTTTTAAA
Found at i:2047146 original size:72 final size:73
Alignment explanation
Indices: 2046968--2047147 Score: 238
Period size: 71 Copynumber: 2.5 Consensus size: 73
2046958 ATAATATAGT
* * * *
2046968 TTTTGAAAATATATAATATATAGTTTTTGGAAACTTATTTTTAAAAAAATATAATATATAGTTTT
1 TTTTGAAAACATATAATATATAGTTTTT-GAAAATAATTTTGAAAAAAATATAATATATAGTTTT
*
2047033 TTAAAACGG
65 TTAAAACAG
* * *
2047042 TTTTGAAAACATATAGTATATAGTTTTT-AAAATAATTTTGGAAAACATATAATATATAG-TTTT
1 TTTTGAAAACATATAATATATAGTTTTTGAAAATAATTTTGAAAAAAATATAATATATAGTTTTT
*
2047105 TAAAATAG
66 TAAAACAG
* *
2047113 TTTTGAAAGCGTATAATATATAGTTTTTGAAAATA
1 TTTTGAAAACATATAATATATAGTTTTTGAAAATA
2047148 TATAAATTTT
Statistics
Matches: 93, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
71 35 0.38
72 32 0.34
74 26 0.28
ACGTcount: A:0.43, C:0.03, G:0.11, T:0.43
Consensus pattern (73 bp):
TTTTGAAAACATATAATATATAGTTTTTGAAAATAATTTTGAAAAAAATATAATATATAGTTTTT
TAAAACAG
Found at i:2052386 original size:21 final size:21
Alignment explanation
Indices: 2052357--2052416 Score: 111
Period size: 21 Copynumber: 2.9 Consensus size: 21
2052347 GGCATGTGAA
*
2052357 ATCTATGTCCCGAAGGACATC
1 ATCTGTGTCCCGAAGGACATC
2052378 ATCTGTGTCCCGAAGGACATC
1 ATCTGTGTCCCGAAGGACATC
2052399 ATCTGTGTCCCGAAGGAC
1 ATCTGTGTCCCGAAGGAC
2052417 CTATCCATAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.23
Consensus pattern (21 bp):
ATCTGTGTCCCGAAGGACATC
Found at i:2053434 original size:15 final size:15
Alignment explanation
Indices: 2053414--2053443 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2053404 ATACCTCTCT
*
2053414 TATGGTATCGGTACC
1 TATGGTATCGATACC
2053429 TATGGTATCGATACC
1 TATGGTATCGATACC
2053444 ACCCTCCTAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.33
Consensus pattern (15 bp):
TATGGTATCGATACC
Found at i:2062370 original size:21 final size:21
Alignment explanation
Indices: 2062341--2062399 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
2062331 GGCATGTGAA
*
2062341 ATCTATGTCCCGAAGGAAATC
1 ATCTGTGTCCCGAAGGAAATC
* * *
2062362 ATCTGTGTCCCAAAAGACATC
1 ATCTGTGTCCCGAAGGAAATC
* *
2062383 ATCTGTTTCCCGTAGGA
1 ATCTGTGTCCCGAAGGA
2062400 CCTATCCATA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (21 bp):
ATCTGTGTCCCGAAGGAAATC
Found at i:2062434 original size:31 final size:30
Alignment explanation
Indices: 2062401--2062523 Score: 129
Period size: 31 Copynumber: 4.0 Consensus size: 30
2062391 CCCGTAGGAC
** *
2062401 CTATCCATATGTTTCGAAGAACATAGGTAAC
1 CTATCCATATGTACCGAAG-ACATAGGTAAA
2062432 CTATCCATATGTACCGAATGACATAGGTAAA
1 CTATCCATATGTACCGAA-GACATAGGTAAA
* *
2062463 CTGTCCATATGTCCCGAAGGACATAGGTAAA
1 CTATCCATATGTACCGAA-GACATAGGTAAA
* * * *
2062494 CTGTCCATATGTCCCGTAGGACATAAGTAA
1 CTATCCATATGTACCG-AAGACATAGGTAA
2062524 CCCTCGAATC
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
31 80 0.98
32 2 0.02
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (30 bp):
CTATCCATATGTACCGAAGACATAGGTAAA
Found at i:2062501 original size:62 final size:62
Alignment explanation
Indices: 2062404--2062523 Score: 159
Period size: 62 Copynumber: 1.9 Consensus size: 62
2062394 GTAGGACCTA
** * * *
2062404 TCCATATGTTTCGAAGAACATAGGTAACCTATCCATATGTACCGAATGACATAGGTAAACTG
1 TCCATATGTCCCGAAGAACATAGGTAAACTATCCATATGTACCGAAGGACATAAGTAAACTG
* * * *
2062466 TCCATATGTCCCGAAGGACATAGGTAAACTGTCCATATGTCCCGTAGGACATAAGTAA
1 TCCATATGTCCCGAAGAACATAGGTAAACTATCCATATGTACCGAAGGACATAAGTAA
2062524 CCCTCGAATC
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
62 49 1.00
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (62 bp):
TCCATATGTCCCGAAGAACATAGGTAAACTATCCATATGTACCGAAGGACATAAGTAAACTG
Found at i:2062963 original size:20 final size:21
Alignment explanation
Indices: 2062918--2062965 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
2062908 TAACTTACCA
2062918 TATTA-TATATATATATACAT
1 TATTATTATATATATATACAT
* *
2062938 TA-TATTATATATGTAT-TAT
1 TATTATTATATATATATACAT
2062957 TATTATTAT
1 TATTATTAT
2062966 TAACAAACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 6 0.25
20 18 0.75
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (21 bp):
TATTATTATATATATATACAT
Found at i:2064087 original size:9 final size:9
Alignment explanation
Indices: 2064075--2064189 Score: 54
Period size: 9 Copynumber: 12.0 Consensus size: 9
2064065 ATTATATATT
2064075 TTTTTTTTA
1 TTTTTTTTA
2064084 -TTTTTTTA
1 TTTTTTTTA
2064092 TCTTCTTTATTA
1 T-TT-TTT-TTA
2064104 TTTGTTTTTA
1 TTT-TTTTTA
*
2064114 -TATTTTTA
1 TTTTTTTTA
2064122 GTTTTTAGTTTA
1 -TTTTT--TTTA
* * *
2064134 TTATTATTG
1 TTTTTTTTA
2064143 TTTTTATTTA
1 TTTTT-TTTA
*
2064153 TTTATTTTA
1 TTTTTTTTA
* * *
2064162 TATCTATTA
1 TTTTTTTTA
*
2064171 TTTATTTTA
1 TTTTTTTTA
2064180 TTTTTGTTTA
1 TTTTT-TTTA
2064190 CTTATATTTT
Statistics
Matches: 79, Mismatches: 17, Indels: 19
0.69 0.15 0.17
Matches are distributed among these distances:
8 14 0.18
9 27 0.34
10 18 0.23
11 12 0.15
12 8 0.10
ACGTcount: A:0.18, C:0.03, G:0.04, T:0.75
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:2064176 original size:35 final size:34
Alignment explanation
Indices: 2064064--2064172 Score: 104
Period size: 35 Copynumber: 3.2 Consensus size: 34
2064054 CTCTTATTAT
*
2064064 TATTATATATT-TTTTT-TTTATTT-TTTTATCTTC
1 TATTAT-TATTGTTTTTATTTATTTATTTTAT-ATC
*
2064097 T-TTATTATTTGTTTTTATATT-TTTAGTTTT-TAGTT
1 TATTATTA-TTGTTTTTAT-TTATTTA-TTTTATA-TC
2064132 TATTATTATTGTTTTTATTTATTTATTTTATATC
1 TATTATTATTGTTTTTATTTATTTATTTTATATC
2064166 TATTATT
1 TATTATT
2064173 TATTTTATTT
Statistics
Matches: 63, Mismatches: 3, Indels: 19
0.74 0.04 0.22
Matches are distributed among these distances:
31 2 0.03
32 6 0.10
33 6 0.10
34 18 0.29
35 21 0.33
36 10 0.16
ACGTcount: A:0.20, C:0.03, G:0.04, T:0.73
Consensus pattern (34 bp):
TATTATTATTGTTTTTATTTATTTATTTTATATC
Found at i:2064189 original size:28 final size:28
Alignment explanation
Indices: 2064117--2064194 Score: 70
Period size: 28 Copynumber: 2.7 Consensus size: 28
2064107 GTTTTTATAT
* *
2064117 TTTTAGTTTTTAGTTTATTATTATTGTTTT
1 TTTTA-TTTTT-GTTTATTATTATTATTTA
*
2064147 TATTTATTTAT-TTTA-TATCTATTATTTA
1 T-TTTATTTTTGTTTATTAT-TATTATTTA
2064175 TTTTATTTTTGTTTACTTAT
1 TTTTATTTTTGTTTA-TTAT
2064195 ATTTTTTCTT
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
27 11 0.28
28 16 0.41
30 8 0.21
31 4 0.10
ACGTcount: A:0.21, C:0.03, G:0.05, T:0.72
Consensus pattern (28 bp):
TTTTATTTTTGTTTATTATTATTATTTA
Found at i:2064470 original size:56 final size:53
Alignment explanation
Indices: 2064359--2064478 Score: 136
Period size: 53 Copynumber: 2.2 Consensus size: 53
2064349 TATTTATACG
* *
2064359 TATATATATATTTTATTTTATTTATTTATTTTTTGTTTTTACCTAATATTTTA
1 TATATATATATTTTATTTTATTTATTTATTTTTTGTTTTTACCTAATACTATA
* * *
2064412 TATGTATATATTTTATTTT-TTTATTTGTTTTTTTGCTTATTTTA-TTAAATACTATA
1 TATATATATATTTTATTTTATTTATTT-ATTTTTTG--T-TTTTACCT-AATACTATA
2064468 TATATATATAT
1 TATATATATAT
2064479 ATATATTACC
Statistics
Matches: 56, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
52 7 0.12
53 25 0.45
55 2 0.04
56 22 0.39
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.66
Consensus pattern (53 bp):
TATATATATATTTTATTTTATTTATTTATTTTTTGTTTTTACCTAATACTATA
Found at i:2064621 original size:17 final size:17
Alignment explanation
Indices: 2064599--2064631 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
2064589 TGGGGCCCCT
2064599 TTATTTTCTTTTCTTTC
1 TTATTTTCTTTTCTTTC
2064616 TTATTTTCTTTTCTTT
1 TTATTTTCTTTTCTTT
2064632 GTTTACTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.79
Consensus pattern (17 bp):
TTATTTTCTTTTCTTTC
Found at i:2064644 original size:22 final size:22
Alignment explanation
Indices: 2064602--2064644 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
2064592 GGCCCCTTTA
*
2064602 TTTTCTTTTCTTTCTTATTTTC
1 TTTTCTTTTCTTACTTATTTTC
*
2064624 TTTTCTTTGT-TTACTTTTTTT
1 TTTTCTTT-TCTTACTTATTTT
2064645 TCATCACGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.05, C:0.14, G:0.02, T:0.79
Consensus pattern (22 bp):
TTTTCTTTTCTTACTTATTTTC
Found at i:2064667 original size:2 final size:2
Alignment explanation
Indices: 2064660--2064690 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
2064650 ACGTTTTATG
*
2064660 TA TA TA TA TA TA TA TA TA TA TA TA TA GA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2064691 TTTATTCTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
TA
Found at i:2064771 original size:5 final size:5
Alignment explanation
Indices: 2064763--2064847 Score: 84
Period size: 5 Copynumber: 16.4 Consensus size: 5
2064753 CCCTTCATTT
2064763 TTTTA TTTTA -TTTA TATTTA TTTTA TTATTA TTTTA TTATT- TTTTA
1 TTTTA TTTTA TTTTA T-TTTA TTTTA TT-TTA TTTTA TT-TTA TTTTA
* * *
2064809 TTTTA CTTTG TTTTC TTTTA TTATTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA -T-TTTA TTTTA TTTTA TT
2064848 CTTTAGCCAT
Statistics
Matches: 68, Mismatches: 5, Indels: 14
0.78 0.06 0.16
Matches are distributed among these distances:
4 6 0.09
5 44 0.65
6 14 0.21
7 4 0.06
ACGTcount: A:0.20, C:0.02, G:0.01, T:0.76
Consensus pattern (5 bp):
TTTTA
Found at i:2064812 original size:41 final size:42
Alignment explanation
Indices: 2064761--2064842 Score: 123
Period size: 41 Copynumber: 2.0 Consensus size: 42
2064751 TTCCCTTCAT
2064761 TTTTTTATTTTA-TTTATATTTATTTTATTA-TTATTTTATTA
1 TTTTTTATTTTACTTTAT-TTTATTTTATTATTTATTTTATTA
* *
2064802 TTTTTTATTTTACTTTGTTTTCTTTTATTATTTATTTTATT
1 TTTTTTATTTTACTTTATTTTATTTTATTATTTATTTTATT
2064843 TTATTCTTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
41 23 0.62
42 14 0.38
ACGTcount: A:0.20, C:0.02, G:0.01, T:0.77
Consensus pattern (42 bp):
TTTTTTATTTTACTTTATTTTATTTTATTATTTATTTTATTA
Found at i:2065000 original size:8 final size:8
Alignment explanation
Indices: 2064982--2065011 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
2064972 TTTATTCCTC
2064982 ATTATTATT
1 ATTA-TATT
2064991 ATTATATT
1 ATTATATT
2064999 ATTATATT
1 ATTATATT
2065007 ATTAT
1 ATTAT
2065012 TTCATGAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 17 0.81
9 4 0.19
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (8 bp):
ATTATATT
Found at i:2067863 original size:99 final size:99
Alignment explanation
Indices: 2067745--2067932 Score: 306
Period size: 99 Copynumber: 1.9 Consensus size: 99
2067735 TTATAATATC
*
2067745 ATATATATACAATAAAGCTTGAGCTGTCCCTCTAAAGCAATTGGTTAAACGCCCC-GACTTTATG
1 ATATATATACAATAAAGCTTGAACTGTCCCTCTAAAGCAATTGGTTAAACGCCCCAG-CTTTATG
* * *
2067809 GATAAGATTCATCTAGCCTTATAAATATGATTATA
65 GATAAGATTCAGCTAACCTGATAAATATGATTATA
* *
2067844 ATATCTATACAATAAAGCTTGAACTGTCCCTCTAAGGCAATTGGTTAAACGCCCCAGCTTTATGG
1 ATATATATACAATAAAGCTTGAACTGTCCCTCTAAAGCAATTGGTTAAACGCCCCAGCTTTATGG
2067909 ATAAGATTCAGCTAACCTGATAAA
66 ATAAGATTCAGCTAACCTGATAAA
2067933 GGTGTTTATA
Statistics
Matches: 82, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
99 81 0.99
100 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (99 bp):
ATATATATACAATAAAGCTTGAACTGTCCCTCTAAAGCAATTGGTTAAACGCCCCAGCTTTATGG
ATAAGATTCAGCTAACCTGATAAATATGATTATA
Found at i:2068846 original size:64 final size:64
Alignment explanation
Indices: 2068745--2068911 Score: 298
Period size: 64 Copynumber: 2.6 Consensus size: 64
2068735 TGCATCTTTT
* *
2068745 AGAGTCAATTTCGACTTCACAGCGAAGGATATTGGACTCAACAAATAACTTTCCAATTTCATTC
1 AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAACAAACAACTTTCCAATTTCATTC
*
2068809 AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAACAAACAACTTTCCAATTTTATTC
1 AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAACAAACAACTTTCCAATTTCATTC
*
2068873 AGAGTCAATTTCAACTTCACAGCGAAGAATATTGGACTC
1 AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTC
2068912 GAAGCGACAC
Statistics
Matches: 99, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
64 99 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (64 bp):
AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAACAAACAACTTTCCAATTTCATTC
Found at i:2069160 original size:124 final size:124
Alignment explanation
Indices: 2068995--2069417 Score: 604
Period size: 124 Copynumber: 3.4 Consensus size: 124
2068985 GAAACAATAC
* *
2068995 TTGGATTTCAACTTCACGGCGAAGAATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCAT
1 TTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCAT
* ** *
2069060 CGACGATTTCAACTTCACGACGAAAGATATTATGCCCACCTGCAACATTCATCTTTAGA
66 CCACGATTTCAACTTCACGACGAAAGATATCGTGCCCACCAGCAACATTCATCTTTAGA
*
2069119 TTGGATTTCAACTTCACGACGAAGGATATCCATTTCAAGGCTCAACTTCACAACGAAGGGGCCAT
1 TTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCAT
* * *
2069184 CCACGATTTCAACTTCACGACG-AAGAATATCGTGCCCACAACCAAC-TT-A-CTTAAGA
66 CCACGATTTCAACTTCACGACGAAAG-ATATCGTGCCCACCAGCAACATTCATCTTTAGA
* * * *
2069240 TTGGATTTCAACTTCACGATGAAGGATATTCAATTCAAGGCTCAACTTCACGACGAAGGAGCCAT
1 TTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCAT
* * * *
2069305 CCACGATTTCAAATTTACGAC-AAAGGATATCGTGCCCACCAGCAACATCCATCCTTAGA
66 CCACGATTTCAACTTCACGACGAAA-GATATCGTGCCCACCAGCAACATTCATCTTTAGA
* * *
2069364 TTGGATTTCAACTTCACGATGAAGGATATCCAATTCGAGGCTCAACATCACAAC
1 TTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAAC
2069418 AGTGAATGAG
Statistics
Matches: 267, Mismatches: 26, Indels: 12
0.88 0.09 0.04
Matches are distributed among these distances:
121 105 0.39
122 3 0.01
123 6 0.02
124 153 0.57
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (124 bp):
TTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCAT
CCACGATTTCAACTTCACGACGAAAGATATCGTGCCCACCAGCAACATTCATCTTTAGA
Found at i:2070054 original size:2 final size:2
Alignment explanation
Indices: 2070047--2070077 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
2070037 AAAAGCTTGC
2070047 AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2070078 GTATTATTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:2082779 original size:8 final size:8
Alignment explanation
Indices: 2082766--2082857 Score: 66
Period size: 8 Copynumber: 11.6 Consensus size: 8
2082756 TTATTACATA
2082766 TATATTTT
1 TATATTTT
2082774 TATA-TTT
1 TATATTTT
2082781 T-TATTTT
1 TATATTTT
* *
2082788 TATCTTCT
1 TATATTTT
*
2082796 T-TATTCT
1 TATATTTT
2082803 T-TATTTT
1 TATATTTT
2082810 TATATTTT
1 TATATTTT
2082818 TATATTTT
1 TATATTTT
* *
2082826 GGTTTATTAT
1 --TATATTTT
*
2082836 TATTGTTTT
1 TA-TATTTT
*
2082845 TATTTTTT
1 TATATTTT
2082853 TATAT
1 TATAT
2082858 CTATTATTTT
Statistics
Matches: 67, Mismatches: 11, Indels: 12
0.74 0.12 0.13
Matches are distributed among these distances:
6 2 0.03
7 20 0.30
8 33 0.49
9 6 0.09
10 6 0.09
ACGTcount: A:0.20, C:0.03, G:0.03, T:0.74
Consensus pattern (8 bp):
TATATTTT
Found at i:2082787 original size:6 final size:6
Alignment explanation
Indices: 2082771--2082900 Score: 50
Period size: 6 Copynumber: 20.2 Consensus size: 6
2082761 ACATATATAT
2082771 TTTTATA TTTTTA TTTTTA TCTTCTTTA TTCTTTA TTTTTATA TTTTTA
1 TTTT-TA TTTTTA TTTTTA --TT-TTTA TT-TTTA -TTTT-TA TTTTTA
* * * * *
2082820 TATTTTGG TTTATTA TTATTG TTTTTA -TTTT- TTTATA TCTATTA TTTTT-
1 T-TTTT-A TTT-TTA TTTTTA TTTTTA TTTTTA TTTTTA T-TTTTA TTTTTA
* * * *
2082869 TTGTTTA CTTATA TTTTTC TTTTTA TTATTA T
1 TT-TTTA TTTTTA TTTTTA TTTTTA TTTTTA T
2082901 GTGTATATAT
Statistics
Matches: 93, Mismatches: 17, Indels: 27
0.68 0.12 0.20
Matches are distributed among these distances:
5 9 0.10
6 41 0.44
7 30 0.32
8 9 0.10
9 4 0.04
ACGTcount: A:0.18, C:0.05, G:0.03, T:0.74
Consensus pattern (6 bp):
TTTTTA
Found at i:2082806 original size:22 final size:20
Alignment explanation
Indices: 2082766--2082894 Score: 68
Period size: 22 Copynumber: 6.2 Consensus size: 20
2082756 TTATTACATA
2082766 TATATTTTTATATTTTTATTTT
1 TATA-TTTT-TATTTTTATTTT
*
2082788 TATCTTCTTTATTCTTTATTTT
1 TATATT-TTTATT-TTTATTTT
*
2082810 TATATTTTTATATTTTGGTTTAT
1 TATATTTTTAT-TTTT-ATTT-T
*
2082833 TATTATTGTTT-TTATT-TTTT
1 TA-TATT-TTTATTTTTATTTT
* *
2082853 TATATCTATTATTTTT-TTGT
1 TATAT-TTTTATTTTTATTTT
* * *
2082873 T-TACTTATATTTTTCTTTT
1 TATATTTTTATTTTTATTTT
2082892 TAT
1 TAT
2082895 TATTATGTGT
Statistics
Matches: 85, Mismatches: 11, Indels: 24
0.71 0.09 0.20
Matches are distributed among these distances:
18 8 0.09
19 11 0.13
20 13 0.15
21 17 0.20
22 22 0.26
23 6 0.07
24 5 0.06
25 3 0.04
ACGTcount: A:0.19, C:0.05, G:0.03, T:0.74
Consensus pattern (20 bp):
TATATTTTTATTTTTATTTT
Found at i:2082836 original size:36 final size:36
Alignment explanation
Indices: 2082768--2082857 Score: 96
Period size: 36 Copynumber: 2.5 Consensus size: 36
2082758 ATTACATATA
* *
2082768 TATTTTTATATTTTTAT-TTTTATCTTCTTTATTCTT
1 TATTTTTATATTTTTATATTTTATCTTCATTATT-AT
*
2082804 TATTTTTATATTTTTATATTTTGGT-TT-ATTATTAT
1 TATTTTTATATTTTTATATTTT-ATCTTCATTATTAT
* *
2082839 TGTTTTTATTTTTTTATAT
1 TATTTTTATATTTTTATAT
2082858 CTATTATTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
35 18 0.38
36 22 0.47
37 6 0.13
38 1 0.02
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.74
Consensus pattern (36 bp):
TATTTTTATATTTTTATATTTTATCTTCATTATTAT
Found at i:2082838 original size:26 final size:27
Alignment explanation
Indices: 2082802--2082852 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
2082792 TTCTTTATTC
*
2082802 TTTATTTTTA-TATTTTTATATTTTGG
1 TTTATTATTATTATTTTTATATTTTGG
* *
2082828 TTTATTATTATTGTTTTTATTTTTT
1 TTTATTATTATTATTTTTATATTTT
2082853 TATATCTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 9 0.43
27 12 0.57
ACGTcount: A:0.18, C:0.00, G:0.06, T:0.76
Consensus pattern (27 bp):
TTTATTATTATTATTTTTATATTTTGG
Found at i:2082880 original size:25 final size:26
Alignment explanation
Indices: 2082833--2082882 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
2082823 TTTGGTTTAT
**
2082833 TATTATTGTTTTTATTTTTTTATATC
1 TATTATTGTTTTTATTTACTTATATC
*
2082859 TATTATT-TTTTTGTTTACTTATAT
1 TATTATTGTTTTTATTTACTTATAT
2082883 TTTTCTTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 14 0.67
26 7 0.33
ACGTcount: A:0.20, C:0.04, G:0.04, T:0.72
Consensus pattern (26 bp):
TATTATTGTTTTTATTTACTTATATC
Found at i:2083470 original size:27 final size:24
Alignment explanation
Indices: 2083439--2083572 Score: 99
Period size: 27 Copynumber: 5.1 Consensus size: 24
2083429 TTCATTTTGT
2083439 TTTGTTTTATTTTTATTTATTTTATTA
1 TTTGTTTTATTTTT-TTT-TTTT-TTA
*
2083466 TTTGTTTTACTTTTTTTTTTTTT-
1 TTTGTTTTATTTTTTTTTTTTTTA
*
2083489 TTTCTTTTATTTTTTTTTTTTTTTA
1 TTTGTTTTA-TTTTTTTTTTTTTTA
* **
2083514 TTTTAGTCTTTAGTCATTTTCTGGTTTTTA
1 -TTT-GT-TTTA-T--TTTTTTTTTTTTTA
2083544 TTTGTTTTATTATTTGTTTTTCTTTTA
1 TTTGTTTTATT-TTT-TTTTT-TTTTA
2083571 TT
1 TT
2083573 GTTAAATCTT
Statistics
Matches: 86, Mismatches: 11, Indels: 20
0.74 0.09 0.17
Matches are distributed among these distances:
23 8 0.09
24 16 0.19
25 7 0.08
26 9 0.10
27 25 0.29
28 7 0.08
29 3 0.03
30 11 0.13
ACGTcount: A:0.11, C:0.04, G:0.06, T:0.78
Consensus pattern (24 bp):
TTTGTTTTATTTTTTTTTTTTTTA
Found at i:2083470 original size:32 final size:31
Alignment explanation
Indices: 2083433--2083517 Score: 89
Period size: 35 Copynumber: 2.6 Consensus size: 31
2083423 CTTCCATTCA
*
2083433 TTTTGTTTTGTTTTATTTTTATTTATTTTAT
1 TTTTGTTTTTTTTTATTTTTATTTATTTTAT
* * *
2083464 TATTTGTTTTACTTTTTTTTTTTTTTTTCTTTTAT
1 T-TTTG-TTT--TTTTTTATTTTTATTTATTTTAT
*
2083499 TTTTTTTTTTTTTTATTTT
1 TTTTGTTTTTTTTTATTTT
2083518 AGTCTTTAGT
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
31 11 0.25
32 4 0.09
33 6 0.14
34 3 0.07
35 20 0.45
ACGTcount: A:0.09, C:0.02, G:0.04, T:0.85
Consensus pattern (31 bp):
TTTTGTTTTTTTTTATTTTTATTTATTTTAT
Found at i:2083482 original size:1 final size:1
Alignment explanation
Indices: 2083476--2083517 Score: 57
Period size: 1 Copynumber: 42.0 Consensus size: 1
2083466 TTTGTTTTAC
* * *
2083476 TTTTTTTTTTTTTTTTCTTTTATTTTTTTTTTTTTTTATTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
2083518 AGTCTTTAGT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:0.05, C:0.02, G:0.00, T:0.93
Consensus pattern (1 bp):
T
Found at i:2083496 original size:16 final size:16
Alignment explanation
Indices: 2083433--2083517 Score: 82
Period size: 16 Copynumber: 5.2 Consensus size: 16
2083423 CTTCCATTCA
* *
2083433 TTTTGTTTTGTTTTAT
1 TTTTTTTTTTTTTTAT
*
2083449 TTTTATTTATTTTATTAT
1 TTTT-TTT-TTTTTTTAT
**
2083467 TTGTTTTACTTTTTT-T
1 TT-TTTTTTTTTTTTAT
*
2083483 TTTTTTTTTCTTTTAT
1 TTTTTTTTTTTTTTAT
2083499 TTTTTTTTTTTTTTAT
1 TTTTTTTTTTTTTTAT
2083515 TTT
1 TTT
2083518 AGTCTTTAGT
Statistics
Matches: 55, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
15 9 0.16
16 26 0.47
17 7 0.13
18 11 0.20
19 2 0.04
ACGTcount: A:0.09, C:0.02, G:0.04, T:0.85
Consensus pattern (16 bp):
TTTTTTTTTTTTTTAT
Found at i:2084671 original size:15 final size:15
Alignment explanation
Indices: 2084651--2084680 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2084641 ATACCTCTCT
*
2084651 TATGGTATCGGTACC
1 TATGGTATCGATACC
2084666 TATGGTATCGATACC
1 TATGGTATCGATACC
2084681 ACCCTCCTAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.33
Consensus pattern (15 bp):
TATGGTATCGATACC
Found at i:2090232 original size:189 final size:188
Alignment explanation
Indices: 2089890--2090261 Score: 469
Period size: 189 Copynumber: 2.0 Consensus size: 188
2089880 AGCAAGAAAC
** * *
2089890 TACTTTTGGTTGAAGTTTAAATTTAGGTCTTTAAATCAAGAAGAAGACCTAGGTCGGATGCGATT
1 TACTTTTGGTTGAAGTTTAAACATAGGTCTTTAAACCAAGAAAAAGACCTAGGTCGGATGCGATT
* * * * * * * * *
2089955 TAGTAATAAGTAATTATCTCCCAACCGAATTTACAGCATATCTTAAGTCGAGAAAAGTTTTCTGT
66 TAGCAATAAGGAACTATCTCCCAACCGAATTTACAGCAAAACTCAAGACGAGAAAAGTTATCTAT
* * * *
2090020 CAACGAAAGCTTTCGAATTCGATTCCATTCAGCTCGAGGGCATATCAATCGCATAGTG
131 CAACGAAAACTTTCGAATTCGATTCCATTCAGATCGAGGACATATCAACCGCATAGTG
* * * * *
2090078 TACTTTCTGGTTGAATTTTAAACCAT-GGTCTTTAAGCCAAGAAAAAGACTTAGGTTGGCTGCGA
1 TACTTT-TGGTTGAAGTTTAAA-CATAGGTCTTTAAACCAAGAAAAAGACCTAGGTCGGATGCGA
* *
2090142 TTTAGCAATAAGGAACTATCTCCCAACCTAATTTATAGCAAAACTCAAGACGAGAACAA-TTATC
64 TTTAGCAATAAGGAACTATCTCCCAACCGAATTTACAGCAAAACTCAAGACGAGAA-AAGTTATC
* *
2090206 TATCAACGAAAACTTTTGAGTTCGATTCCATTCAGATCGAGGACATATCAACCGCA
128 TATCAACGAAAACTTTCGAATTCGATTCCATTCAGATCGAGGACATATCAACCGCA
2090262 GGGTAGCAGC
Statistics
Matches: 155, Mismatches: 26, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
188 6 0.04
189 146 0.94
190 3 0.02
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.30
Consensus pattern (188 bp):
TACTTTTGGTTGAAGTTTAAACATAGGTCTTTAAACCAAGAAAAAGACCTAGGTCGGATGCGATT
TAGCAATAAGGAACTATCTCCCAACCGAATTTACAGCAAAACTCAAGACGAGAAAAGTTATCTAT
CAACGAAAACTTTCGAATTCGATTCCATTCAGATCGAGGACATATCAACCGCATAGTG
Found at i:2090856 original size:35 final size:35
Alignment explanation
Indices: 2090745--2091139 Score: 417
Period size: 35 Copynumber: 11.3 Consensus size: 35
2090735 ATAATATAGT
* * *
2090745 TTTTGAAAATATATAATATATAGTTTTTGGAAACTTAT
1 TTTTGAAAACATATAATATATAGTTTTT--AAA-ATAA
* * * *
2090783 TTTTAAAAACGTATAATATATAATTTTTTAAAACAA
1 TTTTGAAAACATATAATATAT-AGTTTTTAAAATAA
* *
2090819 TTTTGAAAACATATAGTATATAGTTTTTAAATTAA
1 TTTTGAAAACATATAATATATAGTTTTTAAAATAA
*
2090854 TTTTGGAAAACATATAATATATAGTTTTTAAAATAG
1 TTTT-GAAAACATATAATATATAGTTTTTAAAATAA
* * * ***
2090890 TTTTGAAAGCGTATAATATATAGTTTTGAAAACGG
1 TTTTGAAAACATATAATATATAGTTTTTAAAATAA
*
2090925 TTTTGAAAACATATAGTATATAGTTTTTAAAATAA
1 TTTTGAAAACATATAATATATAGTTTTTAAAATAA
*
2090960 TTTTGAAAACATATAGTATATAGTTTTTAAAATAA
1 TTTTGAAAACATATAATATATAGTTTTTAAAATAA
*
2090995 TTTTGAAAAC--GT-ATATATAGTTTTTAAAATAA
1 TTTTGAAAACATATAATATATAGTTTTTAAAATAA
*
2091027 TTTTGAAAACGTAT-A-ATATAGTTTTTAAAATAA
1 TTTTGAAAACATATAATATATAGTTTTTAAAATAA
** *
2091060 TTTTGAAATGA-ATAATAATATAGTTTTTGAAAA-CA
1 TTTTGAAAACATATAAT-ATATAGTTTTT-AAAATAA
* * * * * *
2091095 TTTTTAAAACTTATAATATATGGTTTTAAAAACAT
1 TTTTGAAAACATATAATATATAGTTTTTAAAATAA
2091130 TTTTGAAAAC
1 TTTTGAAAAC
2091140 GTGTATATAT
Statistics
Matches: 303, Mismatches: 44, Indels: 23
0.82 0.12 0.06
Matches are distributed among these distances:
32 31 0.10
33 28 0.09
34 6 0.02
35 151 0.50
36 60 0.20
37 3 0.01
38 18 0.06
39 6 0.02
ACGTcount: A:0.44, C:0.04, G:0.10, T:0.43
Consensus pattern (35 bp):
TTTTGAAAACATATAATATATAGTTTTTAAAATAA
Found at i:2091205 original size:6 final size:6
Alignment explanation
Indices: 2091194--2091271 Score: 51
Period size: 6 Copynumber: 13.2 Consensus size: 6
2091184 GGAAATATAA
2091194 TATTAT TATTAT TA-TAT T-TATAT TATTAT TATT-T TA-TATT TATT-T
1 TATTAT TATTAT TATTAT TAT-TAT TATTAT TATTAT TATTA-T TATTAT
* *
2091239 AAGTTA- TATTAT TATTATT TATTTAT TTTTAT T
1 TA-TTAT TATTAT TATTA-T TA-TTAT TATTAT T
2091272 TTTTAACAGG
Statistics
Matches: 58, Mismatches: 3, Indels: 22
0.70 0.04 0.27
Matches are distributed among these distances:
4 1 0.02
5 12 0.21
6 35 0.60
7 7 0.12
8 3 0.05
ACGTcount: A:0.31, C:0.00, G:0.01, T:0.68
Consensus pattern (6 bp):
TATTAT
Found at i:2091218 original size:20 final size:19
Alignment explanation
Indices: 2091196--2091271 Score: 71
Period size: 20 Copynumber: 3.6 Consensus size: 19
2091186 AAATATAATA
2091196 TTATTATTATTATATTTAT
1 TTATTATTATTATATTTAT
2091215 ATTATTATTATTTTATATTTAT
1 -TTATTATTA--TTATATTTAT
2091237 TTAAGTTATATTATTATTATTTAT
1 TT-A--T-TATTATTA-TATTTAT
*
2091261 TTATTTTTATT
1 TTATTATTATT
2091272 TTTTAACAGG
Statistics
Matches: 48, Mismatches: 1, Indels: 14
0.76 0.02 0.22
Matches are distributed among these distances:
20 15 0.31
21 3 0.06
22 11 0.23
23 4 0.08
24 10 0.21
25 5 0.10
ACGTcount: A:0.30, C:0.00, G:0.01, T:0.68
Consensus pattern (19 bp):
TTATTATTATTATATTTAT
Found at i:2091236 original size:28 final size:29
Alignment explanation
Indices: 2091194--2091272 Score: 76
Period size: 31 Copynumber: 2.8 Consensus size: 29
2091184 GGAAATATAA
2091194 TATTA-TTAT-TA-TTATATTTATATTAT
1 TATTATTTATATATTTATATTTATATTAT
*
2091220 TATTATTT-TATATTTATTTAAGTTATATTAT
1 TATTATTTATATATTTA--T-ATTTATATTAT
* *
2091251 TATTATTTATTTATTTTTATTT
1 TATTATTTATATATTTATATTT
2091273 TTTAACAGGT
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
26 6 0.14
27 4 0.10
28 3 0.07
29 3 0.07
30 2 0.05
31 18 0.43
32 6 0.14
ACGTcount: A:0.30, C:0.00, G:0.01, T:0.68
Consensus pattern (29 bp):
TATTATTTATATATTTATATTTATATTAT
Found at i:2091265 original size:17 final size:17
Alignment explanation
Indices: 2091194--2091276 Score: 68
Period size: 17 Copynumber: 4.9 Consensus size: 17
2091184 GGAAATATAA
2091194 TATTATTATTATTATATT
1 TATTATTATTATT-TATT
2091212 TA-TATTATTA-TTA-T
1 TATTATTATTATTTATT
2091226 T-TTA-TATTTATTTAAGTT
1 TATTATTA-TTATTT-A-TT
2091244 ATATTATTATTATTTATT
1 -TATTATTATTATTTATT
* *
2091262 TATTTTTATTTTTTA
1 TATTATTATTATTTA
2091277 ACAGGTCCAA
Statistics
Matches: 54, Mismatches: 2, Indels: 19
0.72 0.03 0.25
Matches are distributed among these distances:
13 2 0.04
14 7 0.13
15 4 0.07
16 2 0.04
17 21 0.39
18 5 0.09
19 2 0.04
20 9 0.17
21 2 0.04
ACGTcount: A:0.30, C:0.00, G:0.01, T:0.69
Consensus pattern (17 bp):
TATTATTATTATTTATT
Found at i:2091270 original size:14 final size:14
Alignment explanation
Indices: 2091196--2091276 Score: 61
Period size: 14 Copynumber: 6.2 Consensus size: 14
2091186 AAATATAATA
2091196 TTATTATTATTATAT
1 TTATTATTATT-TAT
2091211 TTA-TATTA-TTA-
1 TTATTATTATTTAT
2091222 TTATT-TTA--TAT
1 TTATTATTATTTAT
* *
2091233 TTATT-TAAGTTAT
1 TTATTATTATTTAT
2091246 ATTATTATTATTTAT
1 -TTATTATTATTTAT
*
2091261 TTATTTTTATTT-T
1 TTATTATTATTTAT
2091274 TTA
1 TTA
2091277 ACAGGTCCAA
Statistics
Matches: 56, Mismatches: 4, Indels: 14
0.76 0.05 0.19
Matches are distributed among these distances:
10 2 0.04
11 13 0.23
12 3 0.05
13 8 0.14
14 21 0.38
15 9 0.16
ACGTcount: A:0.30, C:0.00, G:0.01, T:0.69
Consensus pattern (14 bp):
TTATTATTATTTAT
Found at i:2096212 original size:23 final size:22
Alignment explanation
Indices: 2096168--2096213 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
2096158 AAATCATAAG
*
2096168 TTATATGATATGAGGTAAGTTA
1 TTATATGACATGAGGTAAGTTA
* *
2096190 TTATATGTACATGATGTATGTTA
1 TTATATG-ACATGAGGTAAGTTA
2096213 T
1 T
2096214 GAGACATGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.33, C:0.02, G:0.20, T:0.46
Consensus pattern (22 bp):
TTATATGACATGAGGTAAGTTA
Found at i:2096697 original size:24 final size:24
Alignment explanation
Indices: 2096638--2096708 Score: 92
Period size: 24 Copynumber: 3.0 Consensus size: 24
2096628 CCTTGTGGAC
* *
2096638 AATT-TACATGGCACTACGGTGC-
1 AATTCTACGTGGCACTTCGGTGCA
* *
2096660 ATTTCTACGCGGCACTTCGGTGCA
1 AATTCTACGTGGCACTTCGGTGCA
2096684 AATTCTACGTGGCACTTCGGTGCA
1 AATTCTACGTGGCACTTCGGTGCA
2096708 A
1 A
2096709 TGATACGAGT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
22 3 0.07
23 15 0.37
24 23 0.56
ACGTcount: A:0.23, C:0.25, G:0.24, T:0.28
Consensus pattern (24 bp):
AATTCTACGTGGCACTTCGGTGCA
Found at i:2101288 original size:23 final size:22
Alignment explanation
Indices: 2101244--2101289 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
2101234 AAATCATAAG
*
2101244 TTATATGATATGAGGTAAGTTA
1 TTATATGACATGAGGTAAGTTA
* *
2101266 TTATATGTACATGATGTATGTTA
1 TTATATG-ACATGAGGTAAGTTA
2101289 T
1 T
2101290 GAGACATGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.33, C:0.02, G:0.20, T:0.46
Consensus pattern (22 bp):
TTATATGACATGAGGTAAGTTA
Found at i:2101626 original size:20 final size:20
Alignment explanation
Indices: 2101601--2101638 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2101591 GTCTACGCGG
*
2101601 TCCTTTGGGACATATATGTA
1 TCCTTTGGAACATATATGTA
*
2101621 TCCTTTGGAACATTTATG
1 TCCTTTGGAACATATATG
2101639 AGGTCCTTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.16, G:0.18, T:0.42
Consensus pattern (20 bp):
TCCTTTGGAACATATATGTA
Found at i:2101778 original size:24 final size:24
Alignment explanation
Indices: 2101724--2101786 Score: 83
Period size: 24 Copynumber: 2.7 Consensus size: 24
2101714 ACAATTTACA
* * *
2101724 TGGCACTACGGTGC-ATTTCTACG
1 TGGCACTTCGGTGCAAATTCAACG
*
2101747 CGGCACTTCGGTGCAAATTCAACG
1 TGGCACTTCGGTGCAAATTCAACG
2101771 TGGCACTTCGGTGCAA
1 TGGCACTTCGGTGCAA
2101787 TGATACGAGT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
23 12 0.35
24 22 0.65
ACGTcount: A:0.21, C:0.27, G:0.27, T:0.25
Consensus pattern (24 bp):
TGGCACTTCGGTGCAAATTCAACG
Found at i:2105645 original size:94 final size:92
Alignment explanation
Indices: 2105485--2105673 Score: 326
Period size: 94 Copynumber: 2.0 Consensus size: 92
2105475 TTTAACAACA
2105485 TGTCCGTTGAACTGTTCACCACATACTTGTTCTTAAATTCTTTCAGGAAGAATGCCAGGTAACTT
1 TGTCCGTTGAACTGTTCACCACATACTTGTTCTTAAATTCTTTCA-GAAGAATGCCAGGTAACTT
2105550 GCTCTAGTGGTGCATGCACCATAGTATT
65 GCTCTAGTGGTGCATGCACCATAGTATT
2105578 TGTCCGTTTGAACTGTTCACCCACATACTTGTTCTTAAATTCTTTCA-AAGAATTGCCAGGTAAC
1 TGTCCG-TTGAACTGTTCA-CCACATACTTGTTCTTAAATTCTTTCAGAAGAA-TGCCAGGTAAC
*
2105642 TTGCTCTAGTGGTGCATGCACCATAGTTTT
63 TTGCTCTAGTGGTGCATGCACCATAGTATT
2105672 TG
1 TG
2105674 ACCACCAAAC
Statistics
Matches: 92, Mismatches: 1, Indels: 5
0.94 0.01 0.05
Matches are distributed among these distances:
93 11 0.12
94 54 0.59
95 27 0.29
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.36
Consensus pattern (92 bp):
TGTCCGTTGAACTGTTCACCACATACTTGTTCTTAAATTCTTTCAGAAGAATGCCAGGTAACTTG
CTCTAGTGGTGCATGCACCATAGTATT
Found at i:2107218 original size:81 final size:79
Alignment explanation
Indices: 2107065--2107279 Score: 292
Period size: 80 Copynumber: 2.7 Consensus size: 79
2107055 CCAACAGTTT
* * * **
2107065 TTAA-CGTTCGTCTAACTGGCATAATTGACACCTTTCTACCA-ATGCACAATTAGGCCATTATTC
1 TTAATCGTTCATCTAACTGGCATAAATGACA-CTTTCTATCATATGCACAGCTAGGCCATTATTC
*
2107128 TTTTACTCAACGGTAC
65 CTTTACTCAAC-GTAC
* *
2107144 TTAATCGTTCATCTAACTGACATAAATGACACATTTCTTTCATATGCACAGCTAGGCCATTATTC
1 TTAATCGTTCATCTAACTGGCATAAATGACAC-TTTCTATCATATGCACAGCTAGGCCATTATTC
2107209 CTTTACTCAACGTAC
65 CTTTACTCAACGTAC
* *
2107224 TTAATCATTCATCTAACTGGCATAAATGAC-CTTTCTGTCATATGCACAGCTAGGCC
1 TTAATCGTTCATCTAACTGGCATAAATGACACTTTCTATCATATGCACAGCTAGGCC
2107280 TCAAAGACAC
Statistics
Matches: 122, Mismatches: 11, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
78 24 0.20
79 6 0.05
80 62 0.51
81 30 0.25
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.34
Consensus pattern (79 bp):
TTAATCGTTCATCTAACTGGCATAAATGACACTTTCTATCATATGCACAGCTAGGCCATTATTCC
TTTACTCAACGTAC
Found at i:2107346 original size:68 final size:68
Alignment explanation
Indices: 2107222--2107757 Score: 799
Period size: 68 Copynumber: 7.9 Consensus size: 68
2107212 TACTCAACGT
* * *
2107222 ACTTAATCATTCATCTAACTGGCATAAATG--ACCTTTCTGTCATATGCACAGCTAGGCCTCAAA
1 ACTTAGTCTTTCATCTAACTGGCATAAATGACACCTTTCTGTCATATGCACAGTTAGGCCTCAAA
2107285 GAC
66 GAC
* * *
2107288 ACTTAGTCTTTCATCTAACTGACATAATTGACACCTTTTTGTCATATGCACAGTTAGGCCTCAAA
1 ACTTAGTCTTTCATCTAACTGGCATAAATGACACCTTTCTGTCATATGCACAGTTAGGCCTCAAA
2107353 GAC
66 GAC
* * * *
2107356 ACTTAGTCTTTCATCTAATTGGCATAAATGACACATTTCTTTCATATACACAGTTAGGCCTCAAA
1 ACTTAGTCTTTCATCTAACTGGCATAAATGACACCTTTCTGTCATATGCACAGTTAGGCCTCAAA
*
2107421 GAA
66 GAC
* * *
2107424 ACTTAGTCTTTCATCTAACTGGCATAAATGACATCTTTCTGTCATATACACAGCTAGGCCTCAAA
1 ACTTAGTCTTTCATCTAACTGGCATAAATGACACCTTTCTGTCATATGCACAGTTAGGCCTCAAA
2107489 GAC
66 GAC
* * *
2107492 ACTTAGTCTTTCATCTAACTGGAATAATTGACACCTTTCTGTCATATGCACAGCTAGGCCTCAAA
1 ACTTAGTCTTTCATCTAACTGGCATAAATGACACCTTTCTGTCATATGCACAGTTAGGCCTCAAA
2107557 GAC
66 GAC
* * *
2107560 ACTTAGTCTTTCATCTAACTGACATAATTGACACCTTTCTATCATATGCACAGTTAGGCCTCAAA
1 ACTTAGTCTTTCATCTAACTGGCATAAATGACACCTTTCTGTCATATGCACAGTTAGGCCTCAAA
2107625 GAC
66 GAC
* * *
2107628 ACTTGGTCTTTCATCTAACTGGCATAAATGACACCTTTCTTTCATATGTACAGTTAGGCCTCAAA
1 ACTTAGTCTTTCATCTAACTGGCATAAATGACACCTTTCTGTCATATGCACAGTTAGGCCTCAAA
2107693 G-C
66 GAC
* * * *
2107695 AAATTAGCCTTTCATCTAACTGGCATAAATGACACATTTATGTCATATGCACAGTTAGGCCTC
1 -ACTTAGTCTTTCATCTAACTGGCATAAATGACACCTTTCTGTCATATGCACAGTTAGGCCTC
2107758 TTGATCTTTT
Statistics
Matches: 427, Mismatches: 40, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
66 26 0.06
67 1 0.00
68 400 0.94
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.32
Consensus pattern (68 bp):
ACTTAGTCTTTCATCTAACTGGCATAAATGACACCTTTCTGTCATATGCACAGTTAGGCCTCAAA
GAC
Found at i:2108258 original size:59 final size:57
Alignment explanation
Indices: 2108122--2108296 Score: 235
Period size: 59 Copynumber: 3.0 Consensus size: 57
2108112 ACCCATATAT
* * *
2108122 TTCCCATATGGAAATTCATACTCTTAGTATGAATTTCTTATCCTTTAGCACAC-AAGG
1 TTCCCATATAGAAATTCATACACTTAGTATGAATTTCTTATCATTTAGCACACGAA-G
* *
2108179 TGCCCAATATAGAAATTCATACAATTAGTATGAATTTCTTATCATGTTAGCACACGAAG
1 TTCCC-ATATAGAAATTCATACACTTAGTATGAATTTCTTATCAT-TTAGCACACGAAG
* * *
2108238 TTCCCTATATTGAAATTCATACACTTAGTATGAATTTCTTAACATTTTGCACACGAAG
1 TTCCC-ATATAGAAATTCATACACTTAGTATGAATTTCTTATCATTTAGCACACGAAG
2108296 T
1 T
2108297 GTCATTTGGT
Statistics
Matches: 104, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
57 4 0.04
58 48 0.46
59 50 0.48
60 2 0.02
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (57 bp):
TTCCCATATAGAAATTCATACACTTAGTATGAATTTCTTATCATTTAGCACACGAAG
Found at i:2108646 original size:20 final size:22
Alignment explanation
Indices: 2108623--2108670 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
2108613 TTCATAGTAT
2108623 CGATACTACTAT-C-ATGGTAC
1 CGATACTACTATACTATGGTAC
*
2108643 CGATACTTCTATACTATGGTAC
1 CGATACTACTATACTATGGTAC
2108665 CGATAC
1 CGATAC
2108671 CCCCTTCCGG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 11 0.44
21 1 0.04
22 13 0.52
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (22 bp):
CGATACTACTATACTATGGTAC
Found at i:2119514 original size:17 final size:16
Alignment explanation
Indices: 2119473--2119514 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 16
2119463 ATTTTACTTT
2119473 AATAATTTAATATTAA
1 AATAATTTAATATTAA
*
2119489 GATATATTTAATGATTAA
1 AATA-ATTTAAT-ATTAA
2119507 AATAATTT
1 AATAATTT
2119515 TTTAATTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 3 0.14
17 11 0.50
18 8 0.36
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (16 bp):
AATAATTTAATATTAA
Found at i:2120241 original size:36 final size:35
Alignment explanation
Indices: 2120116--2120244 Score: 120
Period size: 36 Copynumber: 3.6 Consensus size: 35
2120106 AAGAAATCCA
* *
2120116 AAGTGAAATG-AATTTTTTTTAAAGAAAAACAA-TGT
1 AAGTGAAACGAAATTTGTTTT-AAGAAAAACAACT-T
*
2120151 CAAGTGAAACGAAATTTGTTTTAAGAAAAATAATCTT
1 -AAGTGAAACGAAATTTGTTTTAAGAAAAACAA-CTT
* *
2120188 AAG-AAAGACAAAATTTGTTTTAAGAAAAACAACATT
1 AAGTGAA-ACGAAATTTGTTTTAAGAAAAACAAC-TT
* *
2120224 AAGTGAGACGAATTTTGTTTT
1 AAGTGAAACGAAATTTGTTTT
2120245 TAGTGAAAAC
Statistics
Matches: 77, Mismatches: 10, Indels: 12
0.78 0.10 0.12
Matches are distributed among these distances:
35 3 0.04
36 62 0.81
37 11 0.14
38 1 0.01
ACGTcount: A:0.47, C:0.06, G:0.15, T:0.33
Consensus pattern (35 bp):
AAGTGAAACGAAATTTGTTTTAAGAAAAACAACTT
Found at i:2120637 original size:41 final size:41
Alignment explanation
Indices: 2120592--2120678 Score: 106
Period size: 41 Copynumber: 2.1 Consensus size: 41
2120582 ACCCGGAGTT
* *
2120592 CTTATAGATGGCCTGGAGGACTT-ATCATCTCA-CTCAAAAGA
1 CTTATAGATGACCTAGAGGACTTAATCAT-T-AGCTCAAAAGA
*
2120633 CTTATAGATGACCTAGAGGATTTAATCATTAGGCTCAAAAGA
1 CTTATAGATGACCTAGAGGACTTAATCATTA-GCTCAAAAGA
2120675 CTTA
1 CTTA
2120679 CTGATAGCCC
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
40 1 0.03
41 21 0.52
42 18 0.45
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.29
Consensus pattern (41 bp):
CTTATAGATGACCTAGAGGACTTAATCATTAGCTCAAAAGA
Found at i:2120814 original size:261 final size:257
Alignment explanation
Indices: 2120234--2120839 Score: 718
Period size: 259 Copynumber: 2.3 Consensus size: 257
2120224 AAGTGAGACG
* * *
2120234 AATTTTGTTTTTAGTGAAAACATAAAACGAGAAACTTTGAAAATCGCTTTCTCATTTTTTTTCTC
1 AATTTTCTTTTTA--GAAAACATTAAATGAGAAACTTTGAAAATCGCTTTCTCA---TTTTT-TC
* * * * *
2120299 TCAAATATCATATGAACACATCTTGCTAGGAGGTCTTATAAATGGCTCGGAGGACTTATCATCTT
60 -CAAATATCATATAAAAACATCTTACCAGGAGGTCTTATAAATGGCTCGGAGGACTTATCATCTC
* *** * * *
2120364 GCTTGGAAGACTTACAGATGACCTGGGGGATTTAATCAACAGGATCAAAAGACTTATTGATAGCC
124 ACTCAAAAGACTTACAGATGACCTAGAGGATTTAATCAACAGGATCAAAAGACTTACTGATAGCC
* * *
2120429 CAAATGACTTAAGTTTTGGAAAGAATCTACTTGGTAAGAAACTTTGAAAATTGCTTTCTTACTTT
189 CAAATGACTTAAATTTTGGAAAGAATCTACTTGGTAAGAAACTTTAAAAATTGATTTCTTACTTT
2120494 TAAA
254 TAAA
*** * * *
2120498 AAAAATCATTTTCATAAAAGATTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTTTCACAAA
1 AATTTTC-TTTTTAGAAAACATTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTTTC-CAAA
* * * *
2120563 TATTATATAAAAACATCTTACCCGGAGTTCTTATAGATGGC-CTGGAGGACTTATCATCTCACTC
64 TATCATATAAAAACATCTTACCAGGAGGTCTTATAAATGGCTC-GGAGGACTTATCATCTCACTC
* ** *
2120627 AAAAGACTTATAGATGACCTAGAGGATTTAATCATTAGGCTCAAAAGACTTACTGATAGCCCGAA
128 AAAAGACTTACAGATGACCTAGAGGATTTAATCAACAGGATCAAAAGACTTACTGATAGCCC-AA
* *
2120692 A-GACTTACTAATTTTGGAAATACTCTAC-TGGATAAGAAACTTTAAAAATTGATTTCTTACTTT
192 ATGACTTA--AATTTTGGAAAGAATCTACTTGG-TAAGAAACTTTAAAAATTGATTTCTTACTTT
2120755 TCAAA
254 T-AAA
* *
2120760 AATTTTCTTTTTAGAAAATATTAAATGAGAAACTTTGAAAATCACTTTCTCA-TTTTT-CAAATA
1 AATTTTCTTTTTAGAAAACATTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTTTCCAAATA
2120823 TCATATAAAAACATCTT
66 TCATATAAAAACATCTT
2120840 GGTGGTCGAG
Statistics
Matches: 292, Mismatches: 43, Indels: 20
0.82 0.12 0.06
Matches are distributed among these distances:
258 23 0.08
259 116 0.40
260 16 0.05
261 87 0.30
262 7 0.02
263 35 0.12
264 3 0.01
265 5 0.02
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.35
Consensus pattern (257 bp):
AATTTTCTTTTTAGAAAACATTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTTTCCAAATA
TCATATAAAAACATCTTACCAGGAGGTCTTATAAATGGCTCGGAGGACTTATCATCTCACTCAAA
AGACTTACAGATGACCTAGAGGATTTAATCAACAGGATCAAAAGACTTACTGATAGCCCAAATGA
CTTAAATTTTGGAAAGAATCTACTTGGTAAGAAACTTTAAAAATTGATTTCTTACTTTTAAA
Found at i:2128435 original size:20 final size:20
Alignment explanation
Indices: 2128410--2128449 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
2128400 AATTTAATCG
* *
2128410 AATATATAATTTTAAAATTC
1 AATATAAAATCTTAAAATTC
2128430 AATATAAAATCTTAAAATTC
1 AATATAAAATCTTAAAATTC
2128450 GTTAACACTT
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:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (20 bp):
AATATAAAATCTTAAAATTC
Found at i:2131979 original size:64 final size:63
Alignment explanation
Indices: 2131890--2132051 Score: 175
Period size: 64 Copynumber: 2.5 Consensus size: 63
2131880 CGGTGCACTA
* * * *
2131890 AGAGTGCAACGATGCATGAAGTGCATTCGATGTTTGA-AAAATAGTCTG-GTGCATCGAGGCATG
1 AGAGTGCATCGATGCATGAAATGCATTTGATGTTTCATAAAAT--TC-GAGTGCATCGAGGCATG
2131953 G
63 G
*** * * *
2131954 CTTGTGCATCGATGCATCAAATGCATTTAATGTTTTCATAAAATTCGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGAAATGCATTTGATG-TTTCATAAAATTCGAGTGCATCGAGGCATGG
*
2132018 AGAGTGCATCGGTGCATGAAATGCATTTGATGTT
1 AGAGTGCATCGATGCATGAAATGCATTTGATGTT
2132052 CAATTTATTC
Statistics
Matches: 79, Mismatches: 16, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
63 3 0.04
64 67 0.85
65 4 0.05
66 5 0.06
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (63 bp):
AGAGTGCATCGATGCATGAAATGCATTTGATGTTTCATAAAATTCGAGTGCATCGAGGCATGG
Found at i:2132087 original size:20 final size:20
Alignment explanation
Indices: 2132062--2132100 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
2132052 CAATTTATTC
2132062 ATTGATGCATCGATGCATGG
1 ATTGATGCATCGATGCATGG
*
2132082 ATTGATGCATCGGTGCATG
1 ATTGATGCATCGATGCATG
2132101 CGTCTGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.23, C:0.15, G:0.31, T:0.31
Consensus pattern (20 bp):
ATTGATGCATCGATGCATGG
Found at i:2133176 original size:21 final size:21
Alignment explanation
Indices: 2133142--2133185 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
2133132 CCGGAGGAGG
*
2133142 AGGAGGAGCACGAGAAGAACT
1 AGGAGCAGCACGAGAAGAACT
*
2133163 AGGAGCAGCTCGAGAAGAACT
1 AGGAGCAGCACGAGAAGAACT
2133184 AG
1 AG
2133186 CTCCTGAAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.41, C:0.16, G:0.36, T:0.07
Consensus pattern (21 bp):
AGGAGCAGCACGAGAAGAACT
Found at i:2140717 original size:64 final size:64
Alignment explanation
Indices: 2140597--2140758 Score: 195
Period size: 64 Copynumber: 2.5 Consensus size: 64
2140587 CGGTGCACTA
* *
2140597 AGAGTGCATCGATGCATGAAGTGCATTCGATG-TTTGAAAAATAGCCTGGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGAAATGCATTCGATGTTTTCAAAAATA-CCTGGTGCATCGATGCATGG
*** * * *
2140661 CTTGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAAT-TC-GAGTGTATCGATGCATG
1 AGAGTGCATCGATGCATGAAATGCATTCGATGTTTTCA-AAAATACCTG-GTGCATCGATGCATG
2140724 G
64 G
*
2140725 AGAGTGCATCGGTGCATGAAATGCATTCGATGTT
1 AGAGTGCATCGATGCATGAAATGCATTCGATGTT
2140759 CAATTTATTC
Statistics
Matches: 82, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
63 1 0.01
64 72 0.88
65 4 0.05
66 5 0.06
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (64 bp):
AGAGTGCATCGATGCATGAAATGCATTCGATGTTTTCAAAAATACCTGGTGCATCGATGCATGG
Found at i:2140794 original size:20 final size:20
Alignment explanation
Indices: 2140769--2140807 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
2140759 CAATTTATTC
2140769 ATTGATGCATCGA-TGCATGG
1 ATTGATGCAT-GAGTGCATGG
2140789 ATTGATGCATGAGTGCATG
1 ATTGATGCATGAGTGCATG
2140808 TGTCTGAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.11
20 16 0.89
ACGTcount: A:0.26, C:0.13, G:0.31, T:0.31
Consensus pattern (20 bp):
ATTGATGCATGAGTGCATGG
Found at i:2144928 original size:117 final size:118
Alignment explanation
Indices: 2144722--2144933 Score: 290
Period size: 117 Copynumber: 1.8 Consensus size: 118
2144712 TCCAAATCGG
* * *
2144722 AATTTTCTTTTTCCATACTTTCAAATTTCATTTTTGAAAGTTCTAAATCCTTCTTCAATATTTCG
1 AATTTTCTTTTTCAATACTTTCAAATTTCATTTTTGAAAGTTCTAAATCCTTCTTCAACATTTCA
2144787 TTTTGATTTTCAAAATTCATTTTAG-TTTCTAGAAGAAGTTTGTTTAATTCAA
66 TTTTGATTTTCAAAATTCATTTTAGCTTTCTAGAAGAAGTTTGTTTAATTCAA
* *
2144839 AATTTTCTTTTTCAA-ATTTTTCAAATTTCATTTTTGAAA-TCTCTAACTCCTTTCTT-AACATT
1 AATTTTCTTTTTCAATA-CTTTCAAATTTCATTTTTGAAAGT-TCTAAATCC-TTCTTCAACATT
* *
2144901 TCATTTTGATTTTCTAAA-TCTGTTTTAGCTTTC
63 TCATTTTGATTTTCAAAATTC-ATTTTAGCTTTC
2144934 AAAAGAATAT
Statistics
Matches: 83, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
116 4 0.05
117 70 0.84
118 9 0.11
ACGTcount: A:0.26, C:0.15, G:0.06, T:0.52
Consensus pattern (118 bp):
AATTTTCTTTTTCAATACTTTCAAATTTCATTTTTGAAAGTTCTAAATCCTTCTTCAACATTTCA
TTTTGATTTTCAAAATTCATTTTAGCTTTCTAGAAGAAGTTTGTTTAATTCAA
Found at i:2145506 original size:19 final size:19
Alignment explanation
Indices: 2145482--2145523 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
2145472 ATGTTTTGCC
*
2145482 ATTTTAAATAAAAAAATTA
1 ATTTTAAATAAAAAAATAA
* *
2145501 ATTTTAATTAAAACAATAA
1 ATTTTAAATAAAAAAATAA
2145520 ATTT
1 ATTT
2145524 AGGTCTGCAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (19 bp):
ATTTTAAATAAAAAAATAA
Found at i:2147142 original size:146 final size:146
Alignment explanation
Indices: 2146894--2147577 Score: 1055
Period size: 146 Copynumber: 4.7 Consensus size: 146
2146884 TCTGCCGTCA
* * * * * * *
2146894 TCCACCGTCCGATTGTCCTAATTTTTCAATAGGTTGTTTGTGTTGGCA-TCGCGCAACTTTTCAC
1 TCCACCGTCTGATCGTCCTGATTTTTCAATATGTTGTTCGTGATGGCATTC-CGCAACTTTTGAC
** * * * * *
2146958 CGTTCGGAATATTGATCGCAGATTCCGATCACCGGCAAGAGGCTAAAAACAGTCTGGAATTATTT
65 CGTTCGGAATATTGATCAAAGATTCCGATCACCGGCAAGAGGCTAAAAACCGCCCGGATTTGTTT
*
2147023 TCTTCGATCCGTCACCG
130 TCTCCGATCCGTCACCG
* *
2147040 TCCACCGTATGATCGTCCTGATTTTTCAATATGTTGTTCGAGATGGCATTCCGCAACTTTTGACC
1 TCCACCGTCTGATCGTCCTGATTTTTCAATATGTTGTTCGTGATGGCATTCCGCAACTTTTGACC
* * * * *
2147105 GTTCGGAATATTGATCAAGGATTCTGATAACCAGCAAGAGGCTAAAAACTGCCCGGATTTGTTTT
66 GTTCGGAATATTGATCAAAGATTCCGATCACCGGCAAGAGGCTAAAAACCGCCCGGATTTGTTTT
2147170 CTCCGATCCGTCACCG
131 CTCCGATCCGTCACCG
* *
2147186 TCCACCGTCTGATCGTCCTGATTTTTCAATATATTGTTCGTGATGGCCTTCCGCAACTTTTGACC
1 TCCACCGTCTGATCGTCCTGATTTTTCAATATGTTGTTCGTGATGGCATTCCGCAACTTTTGACC
* *
2147251 GTTCGGAATATTGATCAAATATTCCGATCACCGGAAAGAGGCTAAAAACCGCCCGGATTTGTTTT
66 GTTCGGAATATTGATCAAAGATTCCGATCACCGGCAAGAGGCTAAAAACCGCCCGGATTTGTTTT
2147316 CTCCGATCCGTCACCG
131 CTCCGATCCGTCACCG
*
2147332 TCCACCGTCTGATCGTCCTGATTTTTCAATATGTTGTTCGTGATGGCCTTCCGCAACTTTTGACC
1 TCCACCGTCTGATCGTCCTGATTTTTCAATATGTTGTTCGTGATGGCATTCCGCAACTTTTGACC
*
2147397 GTTCGGAATATTGATCAAATATTCCGATCACCGGCAAGAGGCTAAAAACCGCCCGGATTTGTTTT
66 GTTCGGAATATTGATCAAAGATTCCGATCACCGGCAAGAGGCTAAAAACCGCCCGGATTTGTTTT
2147462 CTCCGATCCGTCACCG
131 CTCCGATCCGTCACCG
*
2147478 TCCACCGTCTGATCGTCCTGATTTTTCAATATGTTGTTCGTGATGGCATTCCGCAACTTTTGACT
1 TCCACCGTCTGATCGTCCTGATTTTTCAATATGTTGTTCGTGATGGCATTCCGCAACTTTTGACC
** * *
2147543 GTTCGGAATATTGATCGGAGATCCCGATCTCCGGC
66 GTTCGGAATATTGATCAAAGATTCCGATCACCGGC
2147578 GAGAATCCGA
Statistics
Matches: 496, Mismatches: 41, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
146 494 1.00
147 2 0.00
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (146 bp):
TCCACCGTCTGATCGTCCTGATTTTTCAATATGTTGTTCGTGATGGCATTCCGCAACTTTTGACC
GTTCGGAATATTGATCAAAGATTCCGATCACCGGCAAGAGGCTAAAAACCGCCCGGATTTGTTTT
CTCCGATCCGTCACCG
Found at i:2147929 original size:3 final size:3
Alignment explanation
Indices: 2147921--2147952 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
2147911 TATGTAACAT
2147921 TAA TAA TAA TAA T-A TAA TAA TAA TAA T-A TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
2147953 TTAAATATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
2 4 0.15
3 23 0.85
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:2147959 original size:14 final size:14
Alignment explanation
Indices: 2147921--2147952 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
2147911 TATGTAACAT
2147921 TAATAATAATAATA
1 TAATAATAATAATA
2147935 TAATAATAATAATA
1 TAATAATAATAATA
2147949 TAAT
1 TAAT
2147953 TTAAATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
TAATAATAATAATA
Found at i:2148549 original size:3 final size:3
Alignment explanation
Indices: 2148541--2148572 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
2148531 TATGTAACAT
2148541 TAA TAA TAA TAA T-A TAA TAA TAA TAA T-A TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
2148573 TTAAATATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
2 4 0.15
3 23 0.85
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:2148579 original size:14 final size:14
Alignment explanation
Indices: 2148541--2148572 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
2148531 TATGTAACAT
2148541 TAATAATAATAATA
1 TAATAATAATAATA
2148555 TAATAATAATAATA
1 TAATAATAATAATA
2148569 TAAT
1 TAAT
2148573 TTAAATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
TAATAATAATAATA
Found at i:2148621 original size:620 final size:620
Alignment explanation
Indices: 2147441--2149311 Score: 3548
Period size: 620 Copynumber: 3.0 Consensus size: 620
2147431 CAAGAGGCTA
2147441 AAAACCGCCCGGATTTGTTTTCTCCGATCCGTCACCGTCCACCGTCTGATCGTCCTGATTTTTCA
1 AAAACCGCCCGGATTTGTTTTCTCCGATCCGTCACCGTCCACCGTCTGATCGTCCTGATTTTTCA
* *
2147506 ATATGTTGTTCGTGATGGCATTCCGCAACTTTTGACTGTTCGGAATATTGATCGGAGATCCCGAT
66 ATATGTTGTTCGTGATGGCATTCCGCAACTTTTGACCGTTCGGAATGTTGATCGGAGATCCCGAT
2147571 CTCCGGCGAGAATCCGACAGATTACGAGAAGTGTTGTTTTC-TTTTTTTTTCCTCCTTCCTCTCA
131 CTCCGGCGAGAATCCGACAGATTACGAGAAGTGTTGTTTTCTTTTTTTTTTCCTCCTTCCTCTCA
2147635 CGTTTTGGCCTCCTCTCTGTCTGGTCTCTCATAATTGCATCTCCATTTTATCATTGAATGTCATT
196 CGTTTTGGCCTCCTCTCTGTCTGGTCTCTCATAATTGCATCTCCATTTTATCATTGAATGTCATT
*
2147700 TTGTCTTTTTCCCCTTTTTTCTTCATTTGTTGCATCATTAGGTAGGAATAGTGAGGGTAGGTAAT
261 TTGTCTTTTT-TCCTTTTTTCTTCATTTGTTGCATCATTAGGTAGGAATAGTGAGGGTAGGTAAT
*
2147765 GGATTAGGTATTTTGCTTTTGACTTGGAAAATTGCTTAAACTTTCGGTGGATAAATGATTCTTTG
325 GGATTAGGTATTTTGCTTTTGACTTGGAAAATTGCTTAAACTTTCGGTGGATGAATGATTCTTTG
* *
2147830 AATTTGGTGGATTTGTTGCAGATTTCACGTGGGCAGCTCGGTTGTGGTGTTGTAACCGTGTCTGG
390 AATTTGGTGGATTTGTTGCAGATTTCACGTGGGCAGCTCGGTTGTGGTGTTGTAACCGGGTATGG
2147895 ATCCTGTAAAATATAATATGTAACATTAATAATAATAATATAATAATAATAATATAATTTAAATA
455 ATCCTGTAAAATATAATATGTAACATTAATAATAATAATATAATAATAATAATATAATTTAAATA
2147960 TAATATTTATAACCCGGACAAAAACGGGTGTCTACAGTTGCCCCTCTTTGCTTATTCTTGTGTTA
520 TAATATTTATAACCCGGACAAAAACGGGTGTCTACAGTTGCCCCTCTTTGCTTATTCTTGTGTTA
2148025 ACAAGAATAGGGCAAAGATAAAAAGACAACGCGTTT
585 ACAAGAATAGGGCAAAGATAAAAAGACAACGCGTTT
2148061 AAAACCGCCCGGATTTGTTTTCTCCGATCCGTCACCGTCCACCGTCTGATCGTCCTGATTTTTCA
1 AAAACCGCCCGGATTTGTTTTCTCCGATCCGTCACCGTCCACCGTCTGATCGTCCTGATTTTTCA
2148126 ATATGTTGTTCGTGATGGCATTCCGCAACTTTTGACCGTTCGGAATGTTGATCGGAGATCCCGAT
66 ATATGTTGTTCGTGATGGCATTCCGCAACTTTTGACCGTTCGGAATGTTGATCGGAGATCCCGAT
2148191 CTCCGGCGAGAATCCGACAGATTACGAGAAGTGTTGTTTTCTTTTTTTTTTCCTCCTTCCTCTCA
131 CTCCGGCGAGAATCCGACAGATTACGAGAAGTGTTGTTTTCTTTTTTTTTTCCTCCTTCCTCTCA
2148256 CGTTTTGGCCTCCTCTCTGTCTGGTCTCTCATAATTGCATCTCCATTTTATCATTGAATGTCATT
196 CGTTTTGGCCTCCTCTCTGTCTGGTCTCTCATAATTGCATCTCCATTTTATCATTGAATGTCATT
2148321 TTGTCTTTTTTCCTTTTTTTCTTCATTTGTTGCATCATTAGGTAGGAATAGTGAGGGTAGGTAAT
261 TTGTCTTTTTTCC-TTTTTTCTTCATTTGTTGCATCATTAGGTAGGAATAGTGAGGGTAGGTAAT
2148386 GGATTAGGTATTTTGC-TTTGACTTGGAAAATTGCTTAAACTTTCGGTGGATGAATGATTCTTTG
325 GGATTAGGTATTTTGCTTTTGACTTGGAAAATTGCTTAAACTTTCGGTGGATGAATGATTCTTTG
2148450 AATTTGGTGGATTTGTTGCAGATTTCACGTGGGCAGCTCGGTTGTGGTGTTGTAACCGGGTATGG
390 AATTTGGTGGATTTGTTGCAGATTTCACGTGGGCAGCTCGGTTGTGGTGTTGTAACCGGGTATGG
2148515 ATCCTGTAAAATATAATATGTAACATTAATAATAATAATATAATAATAATAATATAATTTAAATA
455 ATCCTGTAAAATATAATATGTAACATTAATAATAATAATATAATAATAATAATATAATTTAAATA
2148580 TAATATTTATAACCCGGACAAAAACGGGTGTCTACAGTTGCCCCTCTTTGCTTATTCTTGTGTTA
520 TAATATTTATAACCCGGACAAAAACGGGTGTCTACAGTTGCCCCTCTTTGCTTATTCTTGTGTTA
2148645 ACAAGAATAGGGCAAAGATAAAAAGACAACGCGTTT
585 ACAAGAATAGGGCAAAGATAAAAAGACAACGCGTTT
2148681 AAAACCGCCCGGATTTGTTTTCTCCGATCCGTCACCGTCCACCGTCTGATCGTCCTGATTTTTCA
1 AAAACCGCCCGGATTTGTTTTCTCCGATCCGTCACCGTCCACCGTCTGATCGTCCTGATTTTTCA
2148746 ATATGTTGTTCGTGATGGCATTCCGCAACTTTTGACCGTTCGGAATGTTGATCGGAGATCCCGAT
66 ATATGTTGTTCGTGATGGCATTCCGCAACTTTTGACCGTTCGGAATGTTGATCGGAGATCCCGAT
2148811 CTCCGGCGAGAATCCGACAGATTACGAGAAGTGTTGTTTTCTTTTTTTTTTCCTCCTTCCTCTCA
131 CTCCGGCGAGAATCCGACAGATTACGAGAAGTGTTGTTTTCTTTTTTTTTTCCTCCTTCCTCTCA
2148876 CGTTTTGGCCTCCTCTCTGTCTGGTCTCTCATAATTGCATCTCCATTTTATCATTGAATGTCATT
196 CGTTTTGGCCTCCTCTCTGTCTGGTCTCTCATAATTGCATCTCCATTTTATCATTGAATGTCATT
2148941 TTGTCTTTTTTCCTTTTTTCTTCATTTGTTGCATCATTAGGTAGGAATAGTGAGGGTAGGTAATG
261 TTGTCTTTTTTCCTTTTTTCTTCATTTGTTGCATCATTAGGTAGGAATAGTGAGGGTAGGTAATG
2149006 GATTAGGTATTTTGCTTTTGACTTGGAAAATTGCTTAAACTTTCGGTGGATGAATGATTCTTTGA
326 GATTAGGTATTTTGCTTTTGACTTGGAAAATTGCTTAAACTTTCGGTGGATGAATGATTCTTTGA
2149071 ATTTGGTGGATTTGTTGCAGATTTCACGTGGGCAGCTCGGTTGTGGTGTTGTAACCGGGTATGGA
391 ATTTGGTGGATTTGTTGCAGATTTCACGTGGGCAGCTCGGTTGTGGTGTTGTAACCGGGTATGGA
2149136 TCCTGTAAAATATAATATGTAACATTAATAATAATAATATAATAATAATATTATAATAATAATAT
456 TCCTGTAAAATATAATATGTAAC----AT--TAAT-A-ATAATAAT-ATA--ATAATAATAATAT
*
2149201 AATTTAAATATAATATTTATAACCCGGACAAAAACGGGTGTCTACATTTGCCCCTCTTTGCTTAT
510 AATTTAAATATAATATTTATAACCCGGACAAAAACGGGTGTCTACAGTTGCCCCTCTTTGCTTAT
2149266 TCTTGTGTTAACAAGAATAGGGCAAAGATAAAAAGACAACGCGTTT
575 TCTTGTGTTAACAAGAATAGGGCAAAGATAAAAAGACAACGCGTTT
2149312 TTGTCCAAAT
Statistics
Matches: 1230, Mismatches: 7, Indels: 17
0.98 0.01 0.01
Matches are distributed among these distances:
619 67 0.05
620 857 0.70
621 165 0.13
624 2 0.00
626 4 0.00
627 1 0.00
628 8 0.01
629 3 0.00
631 123 0.10
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.38
Consensus pattern (620 bp):
AAAACCGCCCGGATTTGTTTTCTCCGATCCGTCACCGTCCACCGTCTGATCGTCCTGATTTTTCA
ATATGTTGTTCGTGATGGCATTCCGCAACTTTTGACCGTTCGGAATGTTGATCGGAGATCCCGAT
CTCCGGCGAGAATCCGACAGATTACGAGAAGTGTTGTTTTCTTTTTTTTTTCCTCCTTCCTCTCA
CGTTTTGGCCTCCTCTCTGTCTGGTCTCTCATAATTGCATCTCCATTTTATCATTGAATGTCATT
TTGTCTTTTTTCCTTTTTTCTTCATTTGTTGCATCATTAGGTAGGAATAGTGAGGGTAGGTAATG
GATTAGGTATTTTGCTTTTGACTTGGAAAATTGCTTAAACTTTCGGTGGATGAATGATTCTTTGA
ATTTGGTGGATTTGTTGCAGATTTCACGTGGGCAGCTCGGTTGTGGTGTTGTAACCGGGTATGGA
TCCTGTAAAATATAATATGTAACATTAATAATAATAATATAATAATAATAATATAATTTAAATAT
AATATTTATAACCCGGACAAAAACGGGTGTCTACAGTTGCCCCTCTTTGCTTATTCTTGTGTTAA
CAAGAATAGGGCAAAGATAAAAAGACAACGCGTTT
Found at i:2149169 original size:3 final size:3
Alignment explanation
Indices: 2149161--2149203 Score: 56
Period size: 3 Copynumber: 15.3 Consensus size: 3
2149151 TATGTAACAT
*
2149161 TAA TAA TAA TAA T-A TAA TAA TAA T-A TTA TAA TAA TAA T-A TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
2149204 TTAAATATAA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
2 6 0.17
3 30 0.83
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:2149200 original size:14 final size:14
Alignment explanation
Indices: 2149161--2149200 Score: 71
Period size: 14 Copynumber: 2.9 Consensus size: 14
2149151 TATGTAACAT
*
2149161 TAATAATAATAATA
1 TAATAATAATATTA
2149175 TAATAATAATATTA
1 TAATAATAATATTA
2149189 TAATAATAATAT
1 TAATAATAATAT
2149201 AATTTAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
TAATAATAATATTA
Found at i:2149203 original size:11 final size:11
Alignment explanation
Indices: 2149163--2149196 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
2149153 TGTAACATTA
2149163 ATAATAATAAT
1 ATAATAATAAT
2149174 ATAATAATAAT
1 ATAATAATAAT
*
2149185 ATTATAATAAT
1 ATAATAATAAT
2149196 A
1 A
2149197 ATATAATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
ATAATAATAAT
Found at i:2149542 original size:52 final size:52
Alignment explanation
Indices: 2149473--2150025 Score: 926
Period size: 52 Copynumber: 10.6 Consensus size: 52
2149463 TCGCTCTCTA
* *
2149473 TTTCTTCAGGGAGTAGAACTCGAACGATAATCTTCCTACGAGACTGCCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAAT
* * *
2149525 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGTCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAAT
2149577 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAAT
*
2149629 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGTCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAAT
* * **
2149681 TTTCTTCAGGGACTAGAACTCGAAAAATAATCTTCCTACGGGTTTGCCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAAT
* * *
2149733 TTTCTTCAAGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAAT
2149785 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAAT
* *
2149837 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAAT
* *
2149889 TTTCTTCAGAGACTAGAACTCGAACAATAATCTTCCTATGAGACTGCCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAAT
* * *
2149941 TTTCTTCAGGGACTAGAACTCGACCAATAATCTTCCTACGGGTCTGCCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAAT
2149993 TTTCTTCAGGGACTAGAACTCGAACAATAATCT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCT
2150026 CCAACGATCG
Statistics
Matches: 469, Mismatches: 32, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 469 1.00
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (52 bp):
TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAAT
Found at i:2150080 original size:55 final size:55
Alignment explanation
Indices: 2150021--2150300 Score: 465
Period size: 55 Copynumber: 5.1 Consensus size: 55
2150011 CTCGAACAAT
*
2150021 AATCTCCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
1 AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
* *
2150076 AATCTTCAACAATCGCGTCTGCCCCCTATTTATTCAGAGAGTATAAGACTCGAAC
1 AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
*
2150131 AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGA-TC-CAC
1 AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
* * * * *
2150184 GATCTTCATCAATCGCGTCTGTCCCCTATTTCTTCAGAGAGTATAAGACTCGAAT
1 AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
2150239 AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
1 AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
2150294 AATCTTC
1 AATCTTC
2150301 TTTTGCTTCA
Statistics
Matches: 206, Mismatches: 17, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
53 46 0.22
54 4 0.02
55 156 0.76
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.29
Consensus pattern (55 bp):
AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
Found at i:2150234 original size:108 final size:110
Alignment explanation
Indices: 2150021--2150300 Score: 483
Period size: 108 Copynumber: 2.6 Consensus size: 110
2150011 CTCGAACAAT
*
2150021 AATCTCCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAAC
1 AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAAC
2150086 AATCGCGTCTGCCCCCTATTTATTCAGAGAGTATAAGACTCGAAC
66 AATCGCGTCTGCCCCCTATTTATTCAGAGAGTATAAGACTCGAAC
* * *
2150131 AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGA-TC-CACGATCTTCATC
1 AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAAC
* * *
2150194 AATCGCGTCTGTCCCCTATTTCTTCAGAGAGTATAAGACTCGAAT
66 AATCGCGTCTGCCCCCTATTTATTCAGAGAGTATAAGACTCGAAC
2150239 AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTC
1 AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTC
2150301 TTTTGCTTCA
Statistics
Matches: 159, Mismatches: 9, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
108 100 0.63
109 4 0.03
110 55 0.35
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.29
Consensus pattern (110 bp):
AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAAC
AATCGCGTCTGCCCCCTATTTATTCAGAGAGTATAAGACTCGAAC
Found at i:2152088 original size:19 final size:19
Alignment explanation
Indices: 2152064--2152105 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
2152054 ATGTTTTGCC
*
2152064 ATTTTAAATAAAAAAATTA
1 ATTTTAAATAAAAAAATAA
* *
2152083 ATTTTAATTAAAACAATAA
1 ATTTTAAATAAAAAAATAA
2152102 ATTT
1 ATTT
2152106 AGGTCTGCAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (19 bp):
ATTTTAAATAAAAAAATAA
Found at i:2153718 original size:146 final size:146
Alignment explanation
Indices: 2153474--2154157 Score: 1037
Period size: 146 Copynumber: 4.7 Consensus size: 146
2153464 TCTGCCGTCA
* * * * * * *
2153474 TCCACCGTCCGATTGTCCTGATTTTTCAATAGGTTGTTTGTGTTGG-CATCGCGCAACTTTTCAC
1 TCCACCGTCTGATCGTCCTGATTTTTCAATATGTTGTTCGTGATGGCCTTC-CGCAACTTTTGAC
* ** * ** * *
2153538 CGTTTGGAATATTGATCGCAGATTCCGATCACCGGCAAGAGGCTAAAAACAGTTCGGAATTATTT
65 CGTTCGGAATATTGATCAAAGATTCCGATCACCGGCAAGAGGCTAAAAACCGCCCGGATTTGTTT
*
2153603 TCTTCGATCCGTCACCG
130 TCTCCGATCCGTCACCG
*
2153620 TCCACCGTCCGATCGTCCTGATTTTTCAATATGTTGTTCGTGATGGCCTTCCGCAACTTTTGACC
1 TCCACCGTCTGATCGTCCTGATTTTTCAATATGTTGTTCGTGATGGCCTTCCGCAACTTTTGACC
* * *
2153685 GTTCGGAATATTGATCAAAGATTCTGATAACCGGCAAGAGGCTAAAAACTGCCCGGATTTGTTTT
66 GTTCGGAATATTGATCAAAGATTCCGATCACCGGCAAGAGGCTAAAAACCGCCCGGATTTGTTTT
*
2153750 CTCCGATCTGTCACCG
131 CTCCGATCCGTCACCG
*
2153766 TCCACCGTCTGATCGTCCTGATTTTTCAATATGTTGTTCGTGATGGCCGTCCGCAACTTTTGACC
1 TCCACCGTCTGATCGTCCTGATTTTTCAATATGTTGTTCGTGATGGCCTTCCGCAACTTTTGACC
*
2153831 GTTCGGAATATTGATCAAATATTCCGATCACCGGCAAGAGGCTAAAAACCGCCCGGATTTGTTTT
66 GTTCGGAATATTGATCAAAGATTCCGATCACCGGCAAGAGGCTAAAAACCGCCCGGATTTGTTTT
*
2153896 CTCCGATCCATCACCG
131 CTCCGATCCGTCACCG
* *
2153912 TCCACCGTCTGATCGTCCTGATTTTTCAATATGTTGTTCGTGATTGTCTTCCGCAACTTTTGACC
1 TCCACCGTCTGATCGTCCTGATTTTTCAATATGTTGTTCGTGATGGCCTTCCGCAACTTTTGACC
* * *
2153977 GTTCGGAATATTGATCAAATATTTCGATCACCGGAAAGAGGCTAAAAACCGCCCGGATTTGTTTT
66 GTTCGGAATATTGATCAAAGATTCCGATCACCGGCAAGAGGCTAAAAACCGCCCGGATTTGTTTT
2154042 CTCCGATCCGTCACCG
131 CTCCGATCCGTCACCG
*
2154058 TCCACCGTCTGATCGTCCTGATTTTTCAATATGTTGTTCGTGATGGCATTCCGCAACTTTTGACC
1 TCCACCGTCTGATCGTCCTGATTTTTCAATATGTTGTTCGTGATGGCCTTCCGCAACTTTTGACC
* ** * *
2154123 GTTCGGAATGTTGATCGGAGATCCCGATCTCCGGC
66 GTTCGGAATATTGATCAAAGATTCCGATCACCGGC
2154158 GAGAATCCGA
Statistics
Matches: 494, Mismatches: 43, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
146 491 0.99
147 3 0.01
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.33
Consensus pattern (146 bp):
TCCACCGTCTGATCGTCCTGATTTTTCAATATGTTGTTCGTGATGGCCTTCCGCAACTTTTGACC
GTTCGGAATATTGATCAAAGATTCCGATCACCGGCAAGAGGCTAAAAACCGCCCGGATTTGTTTT
CTCCGATCCGTCACCG
Found at i:2154510 original size:3 final size:3
Alignment explanation
Indices: 2154502--2154547 Score: 71
Period size: 3 Copynumber: 16.3 Consensus size: 3
2154492 TATGTAACAT
2154502 TAA TAA TAA TAA TAA T-A TAA TAA TAA T-A TAA TAA TAA TAA T-A TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2154547 T
1 T
2154548 TTAAATATAA
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
2 6 0.15
3 34 0.85
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:2154523 original size:14 final size:14
Alignment explanation
Indices: 2154502--2154547 Score: 76
Period size: 14 Copynumber: 3.3 Consensus size: 14
2154492 TATGTAACAT
2154502 TAATAATAATAATA
1 TAATAATAATAATA
2154516 -ATATAATAATAATA
1 TA-ATAATAATAATA
2154530 TAATAATAATAATA
1 TAATAATAATAATA
2154544 TAAT
1 TAAT
2154548 TTAAATATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
13 1 0.03
14 28 0.93
15 1 0.03
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
TAATAATAATAATA
Found at i:2154547 original size:11 final size:11
Alignment explanation
Indices: 2154502--2154540 Score: 69
Period size: 11 Copynumber: 3.5 Consensus size: 11
2154492 TATGTAACAT
2154502 TAATAATAATAA
1 TAAT-ATAATAA
2154514 TAATATAATAA
1 TAATATAATAA
2154525 TAATATAATAA
1 TAATATAATAA
2154536 TAATA
1 TAATA
2154541 ATATAATTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 23 0.85
12 4 0.15
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
TAATATAATAA
Found at i:2155637 original size:74 final size:74
Alignment explanation
Indices: 2155512--2155696 Score: 234
Period size: 74 Copynumber: 2.5 Consensus size: 74
2155502 GTTAAATGAC
* * *
2155512 TAGGGGTATCGGTACCTCTA-G-GGGGTATCGGTACCCTTAGGACATTCTGTTTTTCTCGGAGAC
1 TAGGGGTATCGGTACC-CTATGAGGGGTATCGGTACCCTTAGGACAATATGTTTTCCTCGGAGAC
2155575 AAAACTT-GCA
65 AAAA-TTGGCA
* * *
2155585 TAGGGATATCGGTACCCTATGAGGGGTATCAGTACCCATTAGG-CAATATGTTTTCCTCGGAGCC
1 TAGGGGTATCGGTACCCTATGAGGGGTATCGGTACCC-TTAGGACAATATGTTTTCCTCGGAGAC
*
2155649 AAGATTGGCA
65 AAAATTGGCA
2155659 TAGGGGTATCGGTACACCCTATGAGGGGTATCGGTACC
1 TAGGGGTATCGGT--ACCCTATGAGGGGTATCGGTACC
2155697 TCCTTATTTA
Statistics
Matches: 97, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
72 3 0.03
73 18 0.19
74 49 0.51
75 5 0.05
76 22 0.23
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.28
Consensus pattern (74 bp):
TAGGGGTATCGGTACCCTATGAGGGGTATCGGTACCCTTAGGACAATATGTTTTCCTCGGAGACA
AAATTGGCA
Found at i:2157002 original size:14 final size:15
Alignment explanation
Indices: 2156977--2157022 Score: 53
Period size: 14 Copynumber: 3.3 Consensus size: 15
2156967 TTATCAAGTG
*
2156977 AAAAATACAATAACT
1 AAAAATACAATAAAT
2156992 AAAAATA-AATAAAT
1 AAAAATACAATAAAT
*
2157006 -AAAATAGAATAAA-
1 AAAAATACAATAAAT
2157019 AAAA
1 AAAA
2157023 GAAAACACTA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
13 6 0.21
14 15 0.54
15 7 0.25
ACGTcount: A:0.76, C:0.04, G:0.02, T:0.17
Consensus pattern (15 bp):
AAAAATACAATAAAT
Found at i:2158521 original size:15 final size:15
Alignment explanation
Indices: 2158464--2158522 Score: 57
Period size: 14 Copynumber: 3.7 Consensus size: 15
2158454 TGTTTCATTT
2158464 AAAATATTTTTT-AA
1 AAAATATTTTTTGAA
*
2158478 AAATTATTTTTTGTAAA
1 AAAATATTTTTTG--AA
2158495 ATAATTATATTTTTTGAA
1 A-AA--ATATTTTTTGAA
2158513 AAAATATTTT
1 AAAATATTTT
2158523 ATGGAAATTA
Statistics
Matches: 37, Mismatches: 2, Indels: 11
0.74 0.04 0.22
Matches are distributed among these distances:
14 11 0.30
15 7 0.19
17 5 0.14
18 5 0.14
20 9 0.24
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (15 bp):
AAAATATTTTTTGAA
Found at i:2158646 original size:22 final size:23
Alignment explanation
Indices: 2158612--2158654 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
2158602 ATATAATAAA
2158612 TAATATTATTTATTATAAAAACT
1 TAATATTATTTATTATAAAAACT
*
2158635 TAATATTA-TTATTTTAAAAA
1 TAATATTATTTATTATAAAAA
2158655 TATTTGAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (23 bp):
TAATATTATTTATTATAAAAACT
Found at i:2158804 original size:21 final size:23
Alignment explanation
Indices: 2158779--2158825 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
2158769 TCTATAAAAG
*
2158779 TAAAAATATT-AT-ATTATATTT
1 TAAAAATATTAATAAATATATTT
*
2158800 TAAAATTATTAATAAATATATTT
1 TAAAAATATTAATAAATATATTT
2158823 TAA
1 TAA
2158826 GGAATTTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 9 0.41
22 2 0.09
23 11 0.50
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
TAAAAATATTAATAAATATATTT
Found at i:2159087 original size:23 final size:23
Alignment explanation
Indices: 2159045--2159100 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 23
2159035 ATGATTATAT
2159045 TATATTATTAAAAATATTAATAAA
1 TATATT-TTAAAAATATTAATAAA
* * *
2159069 TATATTTTAAATATGTTAATAAT
1 TATATTTTAAAAATATTAATAAA
2159092 TAATATTTT
1 T-ATATTTT
2159101 TATTAAAATG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 15 0.54
24 13 0.46
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (23 bp):
TATATTTTAAAAATATTAATAAA
Found at i:2163217 original size:15 final size:16
Alignment explanation
Indices: 2163175--2163221 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 16
2163165 GCCAATTTGG
2163175 ACCATTTGCACCGAAA
1 ACCATTTGCACCGAAA
*** *
2163191 TTGATTTCCACC-AAA
1 ACCATTTGCACCGAAA
2163206 ACCATTTGCACCGAAA
1 ACCATTTGCACCGAAA
2163222 GTGGCCAAGT
Statistics
Matches: 22, Mismatches: 8, Indels: 2
0.69 0.25 0.06
Matches are distributed among these distances:
15 11 0.50
16 11 0.50
ACGTcount: A:0.36, C:0.30, G:0.11, T:0.23
Consensus pattern (16 bp):
ACCATTTGCACCGAAA
Found at i:2165321 original size:25 final size:26
Alignment explanation
Indices: 2165267--2165321 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 26
2165257 ATAAGAGATA
* * * *
2165267 AAATAAAATATAATAATAATAATAGT
1 AAATAAAAAAGAATAATAAAAAAAGT
2165293 -AATAAAAAAGAAT-ATAAAAAAAGT
1 AAATAAAAAAGAATAATAAAAAAAGT
2165317 AAATA
1 AAATA
2165322 TATATACCTA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
24 9 0.38
25 15 0.62
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (26 bp):
AAATAAAAAAGAATAATAAAAAAAGT
Found at i:2165657 original size:28 final size:27
Alignment explanation
Indices: 2165607--2165659 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 27
2165597 AAATGATGGA
2165607 ATATAGTATAAAAAATAAAACATATGT
1 ATATAGTATAAAAAATAAAACATATGT
*
2165634 ATATA-TATAATAATAATAATACATAT
1 ATATAGTATAA-AA-AATAAAACATAT
2165660 AATAATAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 5 0.22
27 7 0.30
28 11 0.48
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.34
Consensus pattern (27 bp):
ATATAGTATAAAAAATAAAACATATGT
Found at i:2165663 original size:15 final size:13
Alignment explanation
Indices: 2165643--2165676 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 13
2165633 TATATATATA
2165643 ATAATAATAATACAT
1 ATAATAATAA-A-AT
2165658 ATAATAATAAAAT
1 ATAATAATAAAAT
2165671 ATAATA
1 ATAATA
2165677 TATTTAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 8 0.42
14 1 0.05
15 10 0.53
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (13 bp):
ATAATAATAAAAT
Found at i:2165677 original size:18 final size:19
Alignment explanation
Indices: 2165633--2165678 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
2165623 AAAACATATG
2165633 TATATATATAATAATAATAA
1 TATA-ATATAATAATAATAA
*
2165653 TA-CATATAATAATAA-AA
1 TATAATATAATAATAATAA
2165670 TATAATATA
1 TATAATATA
2165679 TTTAAAATAC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
17 4 0.17
18 17 0.74
20 2 0.09
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (19 bp):
TATAATATAATAATAATAA
Found at i:2167359 original size:105 final size:105
Alignment explanation
Indices: 2167070--2168015 Score: 1339
Period size: 105 Copynumber: 9.0 Consensus size: 105
2167060 GTATTGTTCC
* * * * * * * * *
2167070 GAGTCCAATATCCTCCACTGTGAAGTTGAATTTGGTTTTGGAACTGGGAAATTGTTTGTTGACAG
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG-TTGTTGACAA
* * * * * *
2167135 TCAGCCGCCCCTTCG-CTGTGAAGTT-AAGCTTGTGCTGTCTC
65 CCAGCGGTCCCTTCGTC-GTGAAGTTGAA-CTTGCGTTGTCTG
* * * * * **
2167176 GAGTCTAATATCCTTTGTTATGAAGTTGAAATTGACTCTG-AA-T--GAAACT-TTGTTGACAAC
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAAC
*
2167236 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCCG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
2167276 AAGTCCAATATCCTTCGCTGGGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAAC
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAAC
*
2167341 CAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
2167381 GAGTCTAATATCTTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAGTTGTTGTTGACAAC
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAAC
* * * **
2167446 CAGCGATCCCTTCGTCGGGAAGTTGAACTTGCATTACCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
2167486 GAATCCAATATCCTTCGGTGTGACGTTGAAATCGGCTCTGAAATTGGGAAGTTGTTGTTGACAAC
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAAC
* *
2167551 CAGCGGTCCCTTCGTTGTGAAATTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
2167591 GAGTCCAATATCCTTCGCAGTGAAGTTGAAATTGGCTCTAAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG-TTGTTGACAA
* *
2167656 CCAGCGGTCCCTTCGTCGAGAAGTTGAACTTGCGTTGTCTT
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
2167697 GAGTCCAATATCCTTTGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAAC
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAAC
2167762 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
2167802 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAGTTGTTGTTGACAAC
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAAC
2167867 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
2167907 GAGTCTAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAAC
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAAC
*
2167972 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTTTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
2168012 GAGT
1 GAGT
2168016 GATATCCTCC
Statistics
Matches: 754, Mismatches: 78, Indels: 17
0.89 0.09 0.02
Matches are distributed among these distances:
100 71 0.09
101 5 0.01
102 6 0.01
104 5 0.01
105 541 0.72
106 126 0.17
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.33
Consensus pattern (105 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:2179768 original size:3 final size:3
Alignment explanation
Indices: 2179760--2179799 Score: 50
Period size: 3 Copynumber: 14.0 Consensus size: 3
2179750 GTATATATAT
2179760 ATA ATA ATA ATA ATA ATA CAT- ATA ATA ATA A-A AT- ATA ATA
1 ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
2179800 TATTTAAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
2 6 0.18
3 25 0.76
4 2 0.06
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:2179786 original size:15 final size:13
Alignment explanation
Indices: 2179754--2179799 Score: 51
Period size: 12 Copynumber: 3.6 Consensus size: 13
2179744 ACATATGTAT
*
2179754 ATATATATAATAAT
1 ATATA-ATAATAAA
*
2179768 A-ATAATAAT-AC
1 ATATAATAATAAA
2179779 ATATAATAATAAA
1 ATATAATAATAAA
2179792 ATATAATA
1 ATATAATA
2179800 TATTTAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
11 2 0.07
12 13 0.46
13 12 0.43
14 1 0.04
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (13 bp):
ATATAATAATAAA
Found at i:2179810 original size:21 final size:22
Alignment explanation
Indices: 2179752--2179813 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 22
2179742 AAACATATGT
*
2179752 ATATATATATAATAATAATAATA
1 ATATATATAAAATAA-AATAATA
*
2179775 ATACATATAATAATAAAAT-ATA
1 ATATATATAA-AATAAAATAATA
*
2179797 ATATATTTAAAATAAAA
1 ATATATATAAAATAAAA
2179814 ACTAAAAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
21 7 0.21
22 11 0.32
23 11 0.32
24 5 0.15
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (22 bp):
ATATATATAAAATAAAATAATA
Found at i:2182364 original size:15 final size:15
Alignment explanation
Indices: 2182344--2182380 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
2182334 CTCTAACAAT
2182344 CCTTCTTCAAGTAAC
1 CCTTCTTCAAGTAAC
2182359 CCTTCTTCAAGTAAC
1 CCTTCTTCAAGTAAC
2182374 CCTTCTT
1 CCTTCTT
2182381 TTCACAGTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.22, C:0.35, G:0.05, T:0.38
Consensus pattern (15 bp):
CCTTCTTCAAGTAAC
Found at i:2184458 original size:27 final size:27
Alignment explanation
Indices: 2184427--2184484 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 27
2184417 TATTTCAAAA
2184427 TTATA-ATTATATATAA-AAAATATTAAT
1 TTATATATT-TATA-AATAAAATATTAAT
*
2184454 TTATATATTTATAAATAAAATATTTAT
1 TTATATATTTATAAATAAAATATTAAT
2184481 TTAT
1 TTAT
2184485 TTAAAAATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
26 2 0.07
27 23 0.82
28 3 0.11
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (27 bp):
TTATATATTTATAAATAAAATATTAAT
Found at i:2184876 original size:28 final size:26
Alignment explanation
Indices: 2184844--2184898 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 26
2184834 TGAAAATATT
*
2184844 TAAAATTAATTACTAAATTATAATCTAA
1 TAAAATTAAATACTAAATT-TAAT-TAA
*
2184872 TAAAATTAAATACTTAATTTAATTAA
1 TAAAATTAAATACTAAATTTAATTAA
2184898 T
1 T
2184899 TATTTAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 4 0.16
27 4 0.16
28 17 0.68
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (26 bp):
TAAAATTAAATACTAAATTTAATTAA
Found at i:2186089 original size:3 final size:3
Alignment explanation
Indices: 2186083--2186160 Score: 95
Period size: 3 Copynumber: 26.0 Consensus size: 3
2186073 TTATTTTTTT
* *
2186083 TAA TAA TAA TAA TAA TAA T-A TATA TAA TAA TTA TAA TAA TAA TTA
1 TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA
* * *
2186128 TTA TAA TAA TAA TTA TTA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2186161 ATAAATAAAT
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
2 2 0.03
3 62 0.93
4 3 0.04
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (3 bp):
TAA
Found at i:2186479 original size:18 final size:18
Alignment explanation
Indices: 2186456--2186514 Score: 52
Period size: 18 Copynumber: 3.2 Consensus size: 18
2186446 TTCAGATGAG
2186456 TTCTTCTCATTATGAACT
1 TTCTTCTCATTATGAACT
*
2186474 TTCTTCTTC-TTCA-GATGA-G
1 TTCTTC-TCATT-ATGA--ACT
2186493 TTCTTCTCATTATGAACT
1 TTCTTCTCATTATGAACT
2186511 TTCT
1 TTCT
2186515 CTGGAAAAGC
Statistics
Matches: 32, Mismatches: 2, Indels: 14
0.67 0.04 0.29
Matches are distributed among these distances:
17 1 0.03
18 17 0.53
19 13 0.41
20 1 0.03
ACGTcount: A:0.19, C:0.22, G:0.08, T:0.51
Consensus pattern (18 bp):
TTCTTCTCATTATGAACT
Found at i:2186495 original size:37 final size:37
Alignment explanation
Indices: 2186417--2186514 Score: 160
Period size: 37 Copynumber: 2.6 Consensus size: 37
2186407 TTGAATAAGC
2186417 TCTTCTCATTATGAACTTCTTCTTTCTCCTTCAGATGAGT
1 TCTTCTCATTATGAAC-T-TTC-TTCTCCTTCAGATGAGT
*
2186457 TCTTCTCATTATGAACTTTCTTCTTCTTCAGATGAGT
1 TCTTCTCATTATGAACTTTCTTCTCCTTCAGATGAGT
2186494 TCTTCTCATTATGAACTTTCT
1 TCTTCTCATTATGAACTTTCT
2186515 CTGGAAAAGC
Statistics
Matches: 57, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
37 37 0.65
38 3 0.05
39 1 0.02
40 16 0.28
ACGTcount: A:0.18, C:0.23, G:0.09, T:0.49
Consensus pattern (37 bp):
TCTTCTCATTATGAACTTTCTTCTCCTTCAGATGAGT
Found at i:2186631 original size:112 final size:110
Alignment explanation
Indices: 2186456--2186695 Score: 374
Period size: 112 Copynumber: 2.2 Consensus size: 110
2186446 TTCAGATGAG
****
2186456 TTCTTCTCATTATGAACTTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAA
1 TTCTTCTCATTATGAACTTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAA
*
2186521 AAGCTGATCCACCGAGTGATGAATTTAAGCAAAAGGTTGAACAAA
66 AAGCTGATCCACCGAGTGATGAATTTAAGCAAAAAGTTGAACAAA
2186566 TTCTTCTCATTATGAA-TTTCTTCTTCTTCAGATGATGAGTTCTTCTCATTATGAACTCGAACTG
1 TTCTTCTCATTATGAACTTTCTTCTTCTTC--A-GATGAGTTCTTCTCATTATGAACTCGAACTG
* * *
2186630 GAAATGTTGATCCACCGAGTGATGAATTTAAGCAAAAAGTTGAACAAG
63 GAAAAGCTGATCCACCGAGTGATGAATTTAAGCAAAAAGTTGAACAAA
2186678 TTCTTCTCATTATGAACT
1 TTCTTCTCATTATGAACT
2186696 CGAACTGGTA
Statistics
Matches: 118, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
109 13 0.11
110 16 0.14
111 1 0.01
112 87 0.74
113 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.37
Consensus pattern (110 bp):
TTCTTCTCATTATGAACTTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAA
AAGCTGATCCACCGAGTGATGAATTTAAGCAAAAAGTTGAACAAA
Found at i:2186683 original size:73 final size:73
Alignment explanation
Indices: 2186603--2186768 Score: 242
Period size: 73 Copynumber: 2.3 Consensus size: 73
2186593 TCAGATGATG
* * * *
2186603 AGTTCTTCTCATTATGAACTCGAACTGGAAATGTTGATCCACCGAGTGATGAATTTAAGCAAAAA
1 AGTTCTTCTCATTATGAACTCGAACTGGAAATGCTGATCCACCGAATCATGAATTCAAGCAAAAA
2186668 GTTGAACA
66 GTTGAACA
* * **
2186676 AGTTCTTCTCATTATGAACTCGAACTGGTAATGCTGATCTATTGAATCATGAATTCAAGCAAAAA
1 AGTTCTTCTCATTATGAACTCGAACTGGAAATGCTGATCCACCGAATCATGAATTCAAGCAAAAA
**
2186741 GTTGAGTA
66 GTTGAACA
2186749 AGTTCTTCTCATTATGAACT
1 AGTTCTTCTCATTATGAACT
2186769 TCTTCTTCCT
Statistics
Matches: 83, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
73 83 1.00
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (73 bp):
AGTTCTTCTCATTATGAACTCGAACTGGAAATGCTGATCCACCGAATCATGAATTCAAGCAAAAA
GTTGAACA
Found at i:2186804 original size:113 final size:113
Alignment explanation
Indices: 2186676--2186994 Score: 512
Period size: 113 Copynumber: 2.8 Consensus size: 113
2186666 AAGTTGAACA
* * * ** * *
2186676 AGTTCTTCTCATTATGAACTCGAACTGGTAATGCTGATCTATTGAATCATGAATTCAAGCAAAAA
1 AGTTCTTCTCATTATGAACTCGAACTGGAAATGTTGATCCACCGAATAATGAATTTAAGCAAAAA
**
2186741 GTTGAGTAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATG
66 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATG
*
2186789 AGTTCTTCTCATTATGAACTCGAACTGGAAATGTTGATCCACCGAGTAATGAATTTAAGCAAAAA
1 AGTTCTTCTCATTATGAACTCGAACTGGAAATGTTGATCCACCGAATAATGAATTTAAGCAAAAA
*
2186854 GTTGAACAAGTTCTTCTCATTATAAACTTCTTCTTCCTTCTTCAGATG
66 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATG
* *
2186902 AGTTCTTCTCATTATGAACTCGAACTGGAAATGTTGATCCACCGAATGATGGATTTAAGCAAAAA
1 AGTTCTTCTCATTATGAACTCGAACTGGAAATGTTGATCCACCGAATAATGAATTTAAGCAAAAA
*
2186967 ATTGAACAAGTTCTTCTCATTATGAACT
66 GTTGAACAAGTTCTTCTCATTATGAACT
2186995 CGAACTGGAA
Statistics
Matches: 190, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
113 190 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.35
Consensus pattern (113 bp):
AGTTCTTCTCATTATGAACTCGAACTGGAAATGTTGATCCACCGAATAATGAATTTAAGCAAAAA
GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATG
Found at i:2186852 original size:186 final size:185
Alignment explanation
Indices: 2186539--2186881 Score: 571
Period size: 186 Copynumber: 1.8 Consensus size: 185
2186529 CCACCGAGTG
* * * *
2186539 ATGAATTTAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCTTCAGATGATGA
1 ATGAATTCAAGCAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCTTCACATGATGA
*
2186604 GTTCTTCTCATTATGAACTCGAACTGGAAATGTTGATCCACCGAGTGATGAATTTAAGCAAAAAG
66 GTTCTTCTCATTATGAACTCGAACTGGAAATGTTGATCCACCGAGTAATGAATTTAAGCAAAAAG
*
2186669 TTGAACAAGTTCTTCTCATTATGAACTCGAACTGGTAATGCTGATCTATTGAATC
131 TTGAACAAGTTCTTCTCATTATAAACTCGAACTGGTAATGCTGATCTATTGAATC
** * *
2186724 ATGAATTCAAGCAAAAAGTTGAGTAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA-GAT
1 ATGAATTCAAGCAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTT-CTTC-ACATGAT
2186788 GAGTTCTTCTCATTATGAACTCGAACTGGAAATGTTGATCCACCGAGTAATGAATTTAAGCAAAA
64 GAGTTCTTCTCATTATGAACTCGAACTGGAAATGTTGATCCACCGAGTAATGAATTTAAGCAAAA
2186853 AGTTGAACAAGTTCTTCTCATTATAAACT
129 AGTTGAACAAGTTCTTCTCATTATAAACT
2186882 TCTTCTTCCT
Statistics
Matches: 146, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
185 46 0.32
186 99 0.68
187 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.35
Consensus pattern (185 bp):
ATGAATTCAAGCAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCTTCACATGATGA
GTTCTTCTCATTATGAACTCGAACTGGAAATGTTGATCCACCGAGTAATGAATTTAAGCAAAAAG
TTGAACAAGTTCTTCTCATTATAAACTCGAACTGGTAATGCTGATCTATTGAATC
Found at i:2186981 original size:186 final size:186
Alignment explanation
Indices: 2186789--2187145 Score: 669
Period size: 186 Copynumber: 1.9 Consensus size: 186
2186779 TCTTCAGATG
*
2186789 AGTTCTTCTCATTATGAACTCGAACTGGAAATGTTGATCCACCGAGTAATGAATTTAAGCAAAAA
1 AGTTCTTCTCATTATGAACTCGAACTGGAAATGTTGATCCACCGAATAATGAATTTAAGCAAAAA
2186854 GTTGAACAAGTTCTTCTCATTATAAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
66 GTTGAACAAGTTCTTCTCATTATAAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
2186919 ACTCGAACTGGAAATGTTGATCCACCGAATGATGGATTTAAGCAAAAAATTGAACA
131 ACTCGAACTGGAAATGTTGATCCACCGAATGATGGATTTAAGCAAAAAATTGAACA
* *
2186975 AGTTCTTCTCATTATGAACTCGAACTGGAAATGTTGATCCACCGAATGATGGATTTAAGCAAAAA
1 AGTTCTTCTCATTATGAACTCGAACTGGAAATGTTGATCCACCGAATAATGAATTTAAGCAAAAA
*
2187040 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
66 GTTGAACAAGTTCTTCTCATTATAAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
*
2187105 ACTCGAACTGGAAATGTTGATCCACCGAATGATGGGTTTAA
131 ACTCGAACTGGAAATGTTGATCCACCGAATGATGGATTTAA
2187146 ATCTTTGCTA
Statistics
Matches: 166, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
186 166 1.00
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (186 bp):
AGTTCTTCTCATTATGAACTCGAACTGGAAATGTTGATCCACCGAATAATGAATTTAAGCAAAAA
GTTGAACAAGTTCTTCTCATTATAAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
ACTCGAACTGGAAATGTTGATCCACCGAATGATGGATTTAAGCAAAAAATTGAACA
Found at i:2187021 original size:73 final size:73
Alignment explanation
Indices: 2186902--2187067 Score: 323
Period size: 73 Copynumber: 2.3 Consensus size: 73
2186892 TCTTCAGATG
2186902 AGTTCTTCTCATTATGAACTCGAACTGGAAATGTTGATCCACCGAATGATGGATTTAAGCAAAAA
1 AGTTCTTCTCATTATGAACTCGAACTGGAAATGTTGATCCACCGAATGATGGATTTAAGCAAAAA
2186967 ATTGAACA
66 ATTGAACA
2186975 AGTTCTTCTCATTATGAACTCGAACTGGAAATGTTGATCCACCGAATGATGGATTTAAGCAAAAA
1 AGTTCTTCTCATTATGAACTCGAACTGGAAATGTTGATCCACCGAATGATGGATTTAAGCAAAAA
*
2187040 GTTGAACA
66 ATTGAACA
2187048 AGTTCTTCTCATTATGAACT
1 AGTTCTTCTCATTATGAACT
2187068 TCTTCTTCCT
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 92 1.00
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (73 bp):
AGTTCTTCTCATTATGAACTCGAACTGGAAATGTTGATCCACCGAATGATGGATTTAAGCAAAAA
ATTGAACA
Found at i:2187037 original size:299 final size:298
Alignment explanation
Indices: 2186454--2187132 Score: 1078
Period size: 299 Copynumber: 2.3 Consensus size: 298
2186444 CCTTCAGATG
****
2186454 AGTTCTTCTCATTATGAAC-T-TTCTT-CTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAAC
* * * * *
2186516 TGGAAAAGCTGATCCACCGAGTGATGAATTTAAGCAAAAGGTTGAACAAATTCTTCTCATTATGA
66 TGGAAATGTTGATCCACCGAGTAATGAATTTAAGCAAAAAGTTGAACAAATTCTTCTCATTATAA
* *
2186581 ATTTCTTCTTCTTCAGATGATGAGTTCTTCTCATTATGAACTCGAACTGGAAATGTTGATCCACC
131 ACTTCTTCTTCTTCACATGATGAGTTCTTCTCATTATGAACTCGAACTGGAAATGTTGATCCACC
* * *
2186646 GAGTGATGAATTTAAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTCGAACTGGTAATGCT
196 GAATGATGAATTTAAGCAAAAAATTGAACAAGTTCTTCTCATTATGAACTCGAACTGGAAATGCT
* ** **
2186711 GATCTATTGAATCATGAATTCAAGCAAAAAGTTGAGTA
261 GATCCACCGAATCATGAATTCAAGCAAAAAGTTGAACA
2186749 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAAC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAAC
*
2186814 TGGAAATGTTGATCCACCGAGTAATGAATTTAAGCAAAAAGTTGAACAAGTTCTTCTCATTATAA
66 TGGAAATGTTGATCCACCGAGTAATGAATTTAAGCAAAAAGTTGAACAAATTCTTCTCATTATAA
*
2186879 ACTTCTTCTTCCTTCTTCA-GATGAGTTCTTCTCATTATGAACTCGAACTGGAAATGTTGATCCA
131 ACTTCTTCTT-CTTC-ACATGATGAGTTCTTCTCATTATGAACTCGAACTGGAAATGTTGATCCA
*
2186943 CCGAATGATGGATTTAAGCAAAAAATTGAACAAGTTCTTCTCATTATGAACTCGAACTGGAAATG
194 CCGAATGATGAATTTAAGCAAAAAATTGAACAAGTTCTTCTCATTATGAACTCGAACTGGAAATG
* * * *
2187008 TTGATCCACCGAATGATGGATTTAAGCAAAAAGTTGAACA
259 CTGATCCACCGAATCATGAATTCAAGCAAAAAGTTGAACA
2187048 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAAC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAAC
2187113 TGGAAATGTTGATCCACCGA
66 TGGAAATGTTGATCCACCGA
2187133 ATGATGGGTT
Statistics
Matches: 353, Mismatches: 26, Indels: 6
0.92 0.07 0.02
Matches are distributed among these distances:
295 19 0.05
296 1 0.00
297 5 0.01
298 101 0.29
299 226 0.64
300 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (298 bp):
AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAAC
TGGAAATGTTGATCCACCGAGTAATGAATTTAAGCAAAAAGTTGAACAAATTCTTCTCATTATAA
ACTTCTTCTTCTTCACATGATGAGTTCTTCTCATTATGAACTCGAACTGGAAATGTTGATCCACC
GAATGATGAATTTAAGCAAAAAATTGAACAAGTTCTTCTCATTATGAACTCGAACTGGAAATGCT
GATCCACCGAATCATGAATTCAAGCAAAAAGTTGAACA
Found at i:2188025 original size:115 final size:114
Alignment explanation
Indices: 2187848--2188188 Score: 538
Period size: 114 Copynumber: 3.0 Consensus size: 114
2187838 GATCATGCAG
* * * * * * * *
2187848 TTCATCTTTCAATTCCAATGATTGGTTTTATGGTTCTTACCGAACCAGATCAGATGACTCAAAGA
1 TTCATTTTTCAAATCCAATGATTGATTTTAGGGTTCATACCAAATCAGATCAGATAACTCAAAGA
* *
2187913 ACACTTCCAGAAAATGCTATTGGGTCTTCTTCTTTCTGCTATGAGCAAA
66 ACACTTCCAGAAGATGCTATTGGGTCTTCTTCTTTCTACTATGAGCAAA
2187962 TTCATTTTTTCAAATCCAATGATTGATTTTAGGGTTCATACCAAATCAGATCAGATAACTCAAAG
1 TTCA-TTTTTCAAATCCAATGATTGATTTTAGGGTTCATACCAAATCAGATCAGATAACTCAAAG
*
2188027 AACACTTCCAGAAGATGCTATTGGGTCTTCTTCTTTATACTATGAGCAAA
65 AACACTTCCAGAAGATGCTATTGGGTCTTCTTCTTTCTACTATGAGCAAA
* *
2188077 TTTATTTTTCAAATTCAATGATTGATTTTAGGGTTCATACCAAATCAGATCAGATAACTCAAAGA
1 TTCATTTTTCAAATCCAATGATTGATTTTAGGGTTCATACCAAATCAGATCAGATAACTCAAAGA
* *
2188142 ACACTTCCAGAAGATGCTATTGGGTATTCTTATTTCTACTATGAGCA
66 ACACTTCCAGAAGATGCTATTGGGTCTTCTTCTTTCTACTATGAGCA
2188189 CATGGTACTT
Statistics
Matches: 210, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
114 108 0.51
115 102 0.49
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.35
Consensus pattern (114 bp):
TTCATTTTTCAAATCCAATGATTGATTTTAGGGTTCATACCAAATCAGATCAGATAACTCAAAGA
ACACTTCCAGAAGATGCTATTGGGTCTTCTTCTTTCTACTATGAGCAAA
Found at i:2189385 original size:19 final size:17
Alignment explanation
Indices: 2189361--2189409 Score: 64
Period size: 16 Copynumber: 2.8 Consensus size: 17
2189351 AAAATAAAAG
2189361 AATAAATTGAATTTTCGAA
1 AATAAATTGAATTTTC--A
*
2189380 AATAAATTGAA-TCTCA
1 AATAAATTGAATTTTCA
2189396 AATAAATTGAATTT
1 AATAAATTGAATTT
2189410 AAAGAGAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 12 0.44
17 1 0.04
18 3 0.11
19 11 0.41
ACGTcount: A:0.49, C:0.06, G:0.08, T:0.37
Consensus pattern (17 bp):
AATAAATTGAATTTTCA
Found at i:2197068 original size:15 final size:15
Alignment explanation
Indices: 2197045--2197076 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
2197035 TGAAATGAGT
2197045 AATGAATGTATGCAA
1 AATGAATGTATGCAA
*
2197060 AATGTATGTATGCAA
1 AATGAATGTATGCAA
2197075 AA
1 AA
2197077 AGGTATTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:2200924 original size:28 final size:27
Alignment explanation
Indices: 2200893--2200951 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 27
2200883 TATTTCAAAA
2200893 TTATA-ATTATATATAAAAAAATATTAAT
1 TTATATATT-TATA-AAAAAAATATTAAT
* *
2200921 TTATATATTTATAAATAAAATATTTAT
1 TTATATATTTATAAAAAAAATATTAAT
2200948 TTAT
1 TTAT
2200952 TTAAAAATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 16 0.57
28 9 0.32
29 3 0.11
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (27 bp):
TTATATATTTATAAAAAAAATATTAAT
Found at i:2202551 original size:3 final size:3
Alignment explanation
Indices: 2202545--2202618 Score: 87
Period size: 3 Copynumber: 24.0 Consensus size: 3
2202535 TTATTTTTTT
* *
2202545 TAA TAA TAA TAA TAA T-A TATA TAA TAA TTA TAA TAA TAA TAA TTA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
*
2202590 TAA TAA TAA TAA TAAA TAAA TAA AAA TAA
1 TAA TAA TAA TAA T-AA T-AA TAA TAA TAA
2202619 AAATGGGTAA
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
2 2 0.03
3 50 0.81
4 10 0.16
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:2205240 original size:30 final size:30
Alignment explanation
Indices: 2205206--2205262 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
2205196 GCATTTTACA
2205206 CCGGTTTTGCCAGTT-TTCAGCCGGTTCACC
1 CCGGTTTTGCCAGTTCTT-AGCCGGTTCACC
*
2205236 CCGGTTTTGCCGGTTCTTAGCCGGTTC
1 CCGGTTTTGCCAGTTCTTAGCCGGTTC
2205263 TACCGGTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
30 23 0.92
31 2 0.08
ACGTcount: A:0.07, C:0.32, G:0.26, T:0.35
Consensus pattern (30 bp):
CCGGTTTTGCCAGTTCTTAGCCGGTTCACC
Found at i:2206593 original size:28 final size:27
Alignment explanation
Indices: 2206537--2206600 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 27
2206527 ATAAATAAAC
2206537 AAAAATAAATAGAAGGAAAAAAATCAAA
1 AAAAATAAATAGAAGGAAAAAAA-CAAA
*
2206565 AAAAATAAATCA-AATGGAAAAAGA-AAA
1 AAAAATAAAT-AGAA-GGAAAAAAACAAA
*
2206592 AAATATAAA
1 AAAAATAAA
2206601 AAATATAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
27 11 0.34
28 12 0.38
29 9 0.28
ACGTcount: A:0.75, C:0.03, G:0.09, T:0.12
Consensus pattern (27 bp):
AAAAATAAATAGAAGGAAAAAAACAAA
Found at i:2206633 original size:33 final size:32
Alignment explanation
Indices: 2206521--2206667 Score: 127
Period size: 33 Copynumber: 4.4 Consensus size: 32
2206511 TGTTATATAC
* * *
2206521 AAAATAATAAATAAACAAAAATAAATAGAAGG
1 AAAAAAATAAAAAAATAAAAATAAATAGAAGG
* * *
2206553 AAAAAAATCAAAAAAA-ATAAATCAAATGGAAAAAGA
1 AAAAAAAT-AAAAAAATAAAAAT-AAAT---AGAAGG
2206589 AAAAAATATAAAAAATATAAAAATAAATAGAAGG
1 AAAAAA-ATAAAAAA-ATAAAAATAAATAGAAGG
* *
2206623 AAAAGAATAAAAAAATATTAAATAAATCA-AAGG
1 AAAAAAATAAAAAAATA-AAAATAAAT-AGAAGG
2206656 AAAAAAATAAAA
1 AAAAAAATAAAA
2206668 TAAAAATAAC
Statistics
Matches: 94, Mismatches: 11, Indels: 19
0.76 0.09 0.15
Matches are distributed among these distances:
32 15 0.16
33 41 0.44
34 10 0.11
36 16 0.17
37 7 0.07
38 5 0.05
ACGTcount: A:0.74, C:0.03, G:0.08, T:0.15
Consensus pattern (32 bp):
AAAAAAATAAAAAAATAAAAATAAATAGAAGG
Found at i:2206682 original size:70 final size:71
Alignment explanation
Indices: 2206521--2206682 Score: 183
Period size: 70 Copynumber: 2.3 Consensus size: 71
2206511 TGTTATATAC
2206521 AAAATAATAAATAAACAAAAATAAATAGAAGGAAAAAAATCAAAAAAAATAAATCAAATGGAAAA
1 AAAATAA-AAAT-AAC-AAAATAAATAGAAGGAAAAAAATCAAAAAAAATAAATCAAAT-GAAAA
2206586 AGAAAAAAAT
62 AGAAAAAAAT
* * * *
2206596 -ATA-AAAAATATA-AAAATAAATAGAAGGAAAAGAAT-AAAAAAATATTAAAT-AAAT-CAAAG
1 AAAATAAAAATA-ACAAAATAAATAGAAGGAAAAAAATCAAAAAAA-A-TAAATCAAATGAAAAA
2206655 GAAAAAAAT
63 GAAAAAAAT
2206664 AAAATAAAAATAACAAAAT
1 AAAATAAAAATAACAAAAT
2206683 GTTAAATTGC
Statistics
Matches: 76, Mismatches: 5, Indels: 17
0.78 0.05 0.17
Matches are distributed among these distances:
68 12 0.16
69 10 0.13
70 39 0.51
71 6 0.08
72 5 0.07
73 2 0.03
74 2 0.03
ACGTcount: A:0.74, C:0.03, G:0.07, T:0.15
Consensus pattern (71 bp):
AAAATAAAAATAACAAAATAAATAGAAGGAAAAAAATCAAAAAAAATAAATCAAATGAAAAAGAA
AAAAAT
Found at i:2207128 original size:16 final size:17
Alignment explanation
Indices: 2207107--2207140 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
2207097 TTCCCCGACG
*
2207107 TGCTT-GCTTTTTGTTT
1 TGCTTGGCTTTTGGTTT
2207123 TGCTTGGCTTTTGGTTT
1 TGCTTGGCTTTTGGTTT
2207140 T
1 T
2207141 TTTTTTTGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.00, C:0.12, G:0.24, T:0.65
Consensus pattern (17 bp):
TGCTTGGCTTTTGGTTT
Found at i:2207671 original size:4 final size:4
Alignment explanation
Indices: 2207662--2207731 Score: 51
Period size: 4 Copynumber: 17.8 Consensus size: 4
2207652 GACCAAATTG
*
2207662 AAAT AAAT AAAT AAAT -AAT AAA- ATAA- AAAT AAATT AAACG AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT A-AAT AAAT AAA-T AAA-T AAAT AAAT
*
2207710 AAGT AAAT --AT AATAT AAAT AAA
1 AAAT AAAT AAAT AA-AT AAAT AAA
2207732 AACTTATTTC
Statistics
Matches: 54, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
2 2 0.04
3 6 0.11
4 35 0.65
5 11 0.20
ACGTcount: A:0.71, C:0.01, G:0.03, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:2207787 original size:2 final size:2
Alignment explanation
Indices: 2207780--2207806 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2207770 TTTTCAAAAT
2207780 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
2207807 TCGAAAATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Done.