Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 135 of 221
Found at i:41542618 original size:129 final size:129
Alignment explanation
Indices: 41542142--41542628 Score: 506
Period size: 129 Copynumber: 3.8 Consensus size: 129
41542132 GGTGTTTTTT
* * *
41542142 AAGCACCGCTAAAGACCAAGGTCTATAGCGGCGTTTGATGGGAAAGCGCCGCGAAAGATCCTAGT
1 AAGCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTGATGGGAAAGCGCCGCGAAAGATCCTGGT
* * ** * *
41542207 CTATAGCGGCGTTTTATGGTTAAGCGCCGCGAAAGATCCTGGTCTATAGCGGCATTTTATGGGA
66 CTATAGCGGCGATTTATTGAAAAGCGCCGCGAAAGATCCTGGTCTATAGCGGCGTTTGATGGGA
* *
41542271 AAGCGCCGCGAAAGATCC-TGGTCTATAGCGGCGTTTTATGGGAAAGCGCCGCGAAAGATCCTGG
1 AAGCGCCGCTAAAGA-CCATGGTCTATAGCGGCGTTTGATGGGAAAGCGCCGCGAAAGATCCTGG
* * *
41542335 TCTATAGCGGC-ATTTTATGGAAAAGCACCGCGAAAGATCCTGGTCTATAGCGGCGTTTGACGGG
65 TCTATAGCGGCGA-TTTATTGAAAAGCGCCGCGAAAGATCCTGGTCTATAGCGGCGTTTGATGGG
*
41542399 T
129 A
* ** * *
41542400 AAGCGCCGCTAAAGACCATGGTCTATCGCGGCGTTTGATGCAAAAGTGCCGCTAAAGA-CCATGG
1 AAGCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTGATGGGAAAGCGCCGCGAAAGATCC-TGG
* * * * * * * *
41542464 TCTATGGCGGCGATTGA-TGCCAAAGCGCTGCTAAAGA-CCACGGTCTATAGTGGCGTTTGATGC
65 TCTATAGCGGCGATTTATTG-AAAAGCGCCGCGAAAGATCC-TGGTCTATAGCGGCGTTTGATGG
*
41542527 AA
128 GA
* * ** * *
41542529 AAGCGCCCCTAAAGACCACGGTCTATAGCGGCGTTT-AT-TTATAAGCGCCGCTAAAGA-CCATT
1 AAGCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTGATGGGA-AAGCGCCGCGAAAGATCC-TG
*
41542591 GTCTATAGCGGCG-TTTATTGTAAAAAGCGGCGCGAAAG
64 GTCTATAGCGGCGATTTATTG--AAAAGCGCCGCGAAAG
41542629 TTACCGACGC
Statistics
Matches: 301, Mismatches: 47, Indels: 20
0.82 0.13 0.05
Matches are distributed among these distances:
127 4 0.01
128 41 0.14
129 253 0.84
130 3 0.01
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.23
Consensus pattern (129 bp):
AAGCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTGATGGGAAAGCGCCGCGAAAGATCCTGGT
CTATAGCGGCGATTTATTGAAAAGCGCCGCGAAAGATCCTGGTCTATAGCGGCGTTTGATGGGA
Found at i:41554654 original size:11 final size:11
Alignment explanation
Indices: 41554640--41554672 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
41554630 TGTAATAGAT
41554640 TTAATATTTAA
1 TTAATATTTAA
41554651 TTAATATTTAA
1 TTAATATTTAA
*
41554662 TTTA-ATTTAA
1 TTAATATTTAA
41554672 T
1 T
41554673 GTTTATCTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
10 7 0.33
11 14 0.67
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (11 bp):
TTAATATTTAA
Found at i:41570460 original size:15 final size:14
Alignment explanation
Indices: 41570439--41570474 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
41570429 ATAATCCTTA
*
41570439 ATAATTATCTTAAT
1 ATAATTATCCTAAT
41570453 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
41570468 ATAATTA
1 ATAATTA
41570475 AAATAGAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:41576910 original size:5 final size:5
Alignment explanation
Indices: 41576900--41576950 Score: 59
Period size: 5 Copynumber: 10.0 Consensus size: 5
41576890 TATTTATTTA
* *
41576900 TTATT TTATT TT-CT TTACTT TAATT CTTATT TTATT TTATT TTATT TTATT
1 TTATT TTATT TTATT TTA-TT TTATT -TTATT TTATT TTATT TTATT TTATT
41576951 ATATATTACT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
4 3 0.08
5 29 0.74
6 7 0.18
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.75
Consensus pattern (5 bp):
TTATT
Found at i:41577171 original size:22 final size:21
Alignment explanation
Indices: 41577112--41577171 Score: 66
Period size: 22 Copynumber: 2.8 Consensus size: 21
41577102 GCCCAGAATG
*
41577112 CCTGCAGCCAAACTACCCTATT
1 CCTGCAGCCAAAC-ACCCTATC
* *
41577134 CCTACAGCCAACCACCCTTATC
1 CCTGCAGCCAAACACCC-TATC
*
41577156 CCTGCACCCAAACACC
1 CCTGCAGCCAAACACC
41577172 ACCCCTCAGC
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
21 4 0.13
22 27 0.87
ACGTcount: A:0.28, C:0.48, G:0.07, T:0.17
Consensus pattern (21 bp):
CCTGCAGCCAAACACCCTATC
Found at i:41582558 original size:29 final size:29
Alignment explanation
Indices: 41582504--41582559 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
41582494 GCTTTTAAAG
* *
41582504 ATATTTACAAAAAGAGACAGCTAATTTCA
1 ATATTTACAAAAAGAGACACCAAATTTCA
*
41582533 ATATTTACAAAAATA-ACAACCAAATTT
1 ATATTTACAAAAAGAGAC-ACCAAATTT
41582560 TGTGAAAAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 2 0.09
29 21 0.91
ACGTcount: A:0.52, C:0.14, G:0.05, T:0.29
Consensus pattern (29 bp):
ATATTTACAAAAAGAGACACCAAATTTCA
Found at i:41587771 original size:27 final size:27
Alignment explanation
Indices: 41587752--41587922 Score: 224
Period size: 27 Copynumber: 6.4 Consensus size: 27
41587742 GGGTATAACA
*
41587752 GTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTTCG
* * *
41587779 ATCATTTTACCCTATAGGAGTATTTTG
1 GTCATTTTACCCTATAGGGGTATTTCG
41587806 GTCATTTTACCCTAT-GGGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTTCG
*
41587832 GTCATTTTACCCTATAGGGGTATTTTG
1 GTCATTTTACCCTATAGGGGTATTTCG
41587859 GTCATTTTACCCTATCA-GGGTATTTCG
1 GTCATTTTACCCTAT-AGGGGTATTTCG
* * *
41587886 ATCATTTTACCCTGT-GGGGACATTT-G
1 GTCATTTTACCCTATAGGGG-TATTTCG
41587912 GTCATTTTACC
1 GTCATTTTACC
41587923 TATTTTAGGG
Statistics
Matches: 127, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
26 38 0.30
27 88 0.69
28 1 0.01
ACGTcount: A:0.19, C:0.19, G:0.20, T:0.42
Consensus pattern (27 bp):
GTCATTTTACCCTATAGGGGTATTTCG
Found at i:41587840 original size:53 final size:54
Alignment explanation
Indices: 41587752--41587898 Score: 251
Period size: 53 Copynumber: 2.7 Consensus size: 54
41587742 GGGTATAACA
*
41587752 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATAGGAGTATTTTG
1 GTCATTTTACCCTATCGGGGTATTTCGATCATTTTACCCTATAGGAGTATTTTG
* *
41587806 GTCATTTTACCCTAT-GGGGTATTTCGGTCATTTTACCCTATAGGGGTATTTTG
1 GTCATTTTACCCTATCGGGGTATTTCGATCATTTTACCCTATAGGAGTATTTTG
*
41587859 GTCATTTTACCCTATCAGGGTATTTCGATCATTTTACCCT
1 GTCATTTTACCCTATCGGGGTATTTCGATCATTTTACCCT
41587899 GTGGGGACAT
Statistics
Matches: 88, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
53 51 0.58
54 37 0.42
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.43
Consensus pattern (54 bp):
GTCATTTTACCCTATCGGGGTATTTCGATCATTTTACCCTATAGGAGTATTTTG
Found at i:41587882 original size:80 final size:80
Alignment explanation
Indices: 41587752--41587922 Score: 247
Period size: 80 Copynumber: 2.1 Consensus size: 80
41587742 GGGTATAACA
* * *
41587752 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATAGGAGTATTTTGGTCATTTTACC
1 GTCATTTTACCCTATAGGGGTATTTCGATCATTTTACCCTATAGGAGTATTTCGATCATTTTACC
*
41587817 CTATGGGG-TATTTCG
66 CTATGGGGACATTT-G
* *
41587832 GTCATTTTACCCTATAGGGGTATTTTGGTCATTTTACCCTATCAGG-GTATTTCGATCATTTTAC
1 GTCATTTTACCCTATAGGGGTATTTCGATCATTTTACCCTAT-AGGAGTATTTCGATCATTTTAC
*
41587896 CCTGTGGGGACATTTG
65 CCTATGGGGACATTTG
41587912 GTCATTTTACC
1 GTCATTTTACC
41587923 TATTTTAGGG
Statistics
Matches: 82, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
80 75 0.91
81 7 0.09
ACGTcount: A:0.19, C:0.19, G:0.20, T:0.42
Consensus pattern (80 bp):
GTCATTTTACCCTATAGGGGTATTTCGATCATTTTACCCTATAGGAGTATTTCGATCATTTTACC
CTATGGGGACATTTG
Found at i:41587912 original size:53 final size:52
Alignment explanation
Indices: 41587752--41587922 Score: 245
Period size: 53 Copynumber: 3.2 Consensus size: 52
41587742 GGGTATAACA
*
41587752 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATAGGAGTATTTTG
1 GTCATTTTACCCTAT-GGGGTATTTCGATCATTTTACCCTATAGG-GGATTTTG
*
41587806 GTCATTTTACCCTATGGGGTATTTCGGTCATTTTACCCTATAGGGGTATTTTG
1 GTCATTTTACCCTATGGGGTATTTCGATCATTTTACCCTATAGGGG-ATTTTG
* * *
41587859 GTCATTTTACCCTATCAGGGTATTTCGATCATTTTACCCTGT-GGGGACATTTG
1 GTCATTTTACCCTAT-GGGGTATTTCGATCATTTTACCCTATAGGGGA-TTTTG
41587912 GTCATTTTACC
1 GTCATTTTACC
41587923 TATTTTAGGG
Statistics
Matches: 108, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
52 2 0.02
53 68 0.63
54 38 0.35
ACGTcount: A:0.19, C:0.19, G:0.20, T:0.42
Consensus pattern (52 bp):
GTCATTTTACCCTATGGGGTATTTCGATCATTTTACCCTATAGGGGATTTTG
Found at i:41598814 original size:28 final size:28
Alignment explanation
Indices: 41598781--41598851 Score: 115
Period size: 28 Copynumber: 2.5 Consensus size: 28
41598771 TTGACTTTCG
* *
41598781 ACACTAAGTGTGCGAGTTTAATTGTAAA
1 ACACTAAGTGTGCGAGTTTAATGGAAAA
*
41598809 GCACTAAGTGTGCGAGTTTAATGGAAAA
1 ACACTAAGTGTGCGAGTTTAATGGAAAA
41598837 ACACTAAGTGTGCGA
1 ACACTAAGTGTGCGA
41598852 ACTTCTTAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.27
Consensus pattern (28 bp):
ACACTAAGTGTGCGAGTTTAATGGAAAA
Found at i:41600937 original size:37 final size:37
Alignment explanation
Indices: 41600887--41600965 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
41600877 TTATTACGAA
* *
41600887 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCAG
1 GTCTTACCCGGACAAAATTCT-CACACGAAGTCATCAG
* *
41600924 GTCTTACCCGGACAAAATTCTCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCTCACACGAAGTCATCAG
41600961 GTCTT
1 GTCTT
41600966 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 34 0.92
38 3 0.08
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.27
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCTCACACGAAGTCATCAG
Found at i:41601162 original size:47 final size:47
Alignment explanation
Indices: 41601084--41601509 Score: 690
Period size: 47 Copynumber: 8.9 Consensus size: 47
41601074 CCCTTCGAGA
* * * * * *
41601084 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
41601131 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
41601178 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41601225 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41601274 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
41601321 CCTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41601370 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41601417 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
41601464 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTA
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTA
41601510 CGCCATACTA
Statistics
Matches: 356, Mismatches: 17, Indels: 10
0.93 0.04 0.03
Matches are distributed among these distances:
47 229 0.64
49 127 0.36
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:41601276 original size:96 final size:94
Alignment explanation
Indices: 41601084--41601509 Score: 690
Period size: 96 Copynumber: 4.5 Consensus size: 94
41601074 CCCTTCGAGA
* * * * * * *
41601084 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACAC
41601149 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
* *
41601178 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCAC--ATATATAC
41601243 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
41601274 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCAC--ATATATAC
*
41601339 ACTTTCACATTCATCACATCGGCTATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
*
41601370 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACAC
41601435 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
*
41601464 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTA
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTA
41601510 CGCCATACTA
Statistics
Matches: 313, Mismatches: 15, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
94 91 0.29
96 222 0.71
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:41601382 original size:143 final size:143
Alignment explanation
Indices: 41601084--41601509 Score: 730
Period size: 143 Copynumber: 3.0 Consensus size: 143
41601074 CCCTTCGAGA
* * * * * * * *
41601084 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
41601149 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACACTTTCACATTCATCACA
41601212 TCGGCTATTAGGC
131 TCGGCTATTAGGC
41601225 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
41601290 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACACTTTCACATTCATCA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACACTTTCACATTCATCA
41601355 CATCGGCTATTAGGC
129 CATCGGCTATTAGGC
41601370 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
41601435 TTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACACTTTCACATTCATCACA
*
41601500 TCGGCCATTA
131 TCGGCTATTA
41601510 CGCCATACTA
Statistics
Matches: 271, Mismatches: 10, Indels: 6
0.94 0.03 0.02
Matches are distributed among these distances:
141 8 0.03
143 216 0.80
145 47 0.17
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (143 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACACTTTCACATTCATCACA
TCGGCTATTAGGC
Found at i:41604425 original size:22 final size:22
Alignment explanation
Indices: 41604392--41604518 Score: 94
Period size: 23 Copynumber: 5.5 Consensus size: 22
41604382 TTATGCTTAA
41604392 ATGCTGCTCAATTTATTGTATAT
1 ATGCTGC-CAATTTATTGTATAT
* *
41604415 TTGCTGCCAATTTGTTGTATAT
1 ATGCTGCCAATTTATTGTATAT
* * *
41604437 AAGCTGTCCAATTT-TTGGTGCAAAA
1 ATGCTG-CCAATTTATT-GT--ATAT
* *
41604462 ATGCTGCTCAATATGTTGTATAT
1 ATGCTGC-CAATTTATTGTATAT
* *
41604485 ATGCTGCCTAAATTGTTGTATAT
1 ATGCTGCC-AATTTATTGTATAT
41604508 ATGCTGTCCAA
1 ATGCTG-CCAA
41604519 ATTTTGGTGT
Statistics
Matches: 84, Mismatches: 12, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
22 21 0.25
23 44 0.52
24 3 0.04
25 14 0.17
26 2 0.02
ACGTcount: A:0.26, C:0.15, G:0.17, T:0.42
Consensus pattern (22 bp):
ATGCTGCCAATTTATTGTATAT
Found at i:41604481 original size:70 final size:71
Alignment explanation
Indices: 41604390--41604527 Score: 215
Period size: 71 Copynumber: 2.0 Consensus size: 71
41604380 TTTTATGCTT
* * * *
41604390 AAATGCTGCTCAATTTATTGTATATTTGCTGCC-AATTTGTTGTATATAAGCTGTCCAATTTTTG
1 AAATGCTGCTCAATATATTGTATATATGCTGCCTAAATTGTTGTATATAAGCTGTCCAAATTTTG
41604454 GTGCAA
66 GTGCAA
* *
41604460 AAATGCTGCTCAATATGTTGTATATATGCTGCCTAAATTGTTGTATATATGCTGTCCAAATTTTG
1 AAATGCTGCTCAATATATTGTATATATGCTGCCTAAATTGTTGTATATAAGCTGTCCAAATTTTG
41604525 GTG
66 GTG
41604528 TGAAATTGCT
Statistics
Matches: 61, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
70 30 0.49
71 31 0.51
ACGTcount: A:0.26, C:0.14, G:0.18, T:0.42
Consensus pattern (71 bp):
AAATGCTGCTCAATATATTGTATATATGCTGCCTAAATTGTTGTATATAAGCTGTCCAAATTTTG
GTGCAA
Found at i:41604560 original size:71 final size:70
Alignment explanation
Indices: 41604416--41604560 Score: 155
Period size: 71 Copynumber: 2.1 Consensus size: 70
41604406 ATTGTATATT
* * * *
41604416 TGCTGCCAATTTGTTGTATATAAGCTGTCCAATTTTTGGTGCAAAAATGCTGCTCAATATGTTGT
1 TGCTGCCAAATTGTTGTATATAAGCTGTCCAAATTTTGGTGCAAAAATGCTGCTCAATATGGTAT
* *
41604481 ATATA
66 AAAAA
* ** * * * * *
41604486 TGCTGCCTAAATTGTTGTATATATGCTGTCCAAATTTTGGTGTGAAATTGCTGTTTAGTTTGGTA
1 TGCTGCC-AAATTGTTGTATATAAGCTGTCCAAATTTTGGTGCAAAAATGCTGCTCAATATGGTA
41604551 TAAAAA
65 TAAAAA
41604557 TGCT
1 TGCT
41604561 ATCCATATTG
Statistics
Matches: 60, Mismatches: 14, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
70 7 0.12
71 53 0.88
ACGTcount: A:0.26, C:0.12, G:0.20, T:0.41
Consensus pattern (70 bp):
TGCTGCCAAATTGTTGTATATAAGCTGTCCAAATTTTGGTGCAAAAATGCTGCTCAATATGGTAT
AAAAA
Found at i:41605172 original size:41 final size:41
Alignment explanation
Indices: 41605105--41605289 Score: 117
Period size: 41 Copynumber: 4.5 Consensus size: 41
41605095 GTTTACAAAG
** *
41605105 AAGCG-CTGCTAATGCTCAAGGATTTAGCGACATTTTTGAAA
1 AAGCGCCT-CTAATGCTCGGGGCTTTAGCGACATTTTTGAAA
* * *
41605146 AAGCGCCTCTAATGCTCGGGGCTTTAGCGGCGTATTTG-AA
1 AAGCGCCTCTAATGCTCGGGGCTTTAGCGACATTTTTGAAA
* * ** *
41605186 AAG-GCACTGCTAATGATTC-TGGCTTTAGAAACGTTTTTGAAA
1 AAGCGC-CT-CTAATG-CTCGGGGCTTTAGCGACATTTTTGAAA
* * * * * * *
41605228 AGGCGCCGCTAATGCTTGGTGCTTTAGCGGCATTTGTGAAG
1 AAGCGCCTCTAATGCTCGGGGCTTTAGCGACATTTTTGAAA
* * *
41605269 AAGCACCACTAATGCTAGGGG
1 AAGCGCCTCTAATGCTCGGGG
41605290 ACTTAGTGGC
Statistics
Matches: 108, Mismatches: 29, Indels: 14
0.72 0.19 0.09
Matches are distributed among these distances:
39 2 0.02
40 8 0.07
41 87 0.81
42 9 0.08
43 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (41 bp):
AAGCGCCTCTAATGCTCGGGGCTTTAGCGACATTTTTGAAA
Found at i:41609224 original size:87 final size:87
Alignment explanation
Indices: 41609089--41609256 Score: 266
Period size: 87 Copynumber: 1.9 Consensus size: 87
41609079 AGGCAGCATT
*
41609089 GAGAGAAGCTGAGGTCCAAAGAAAATATGAAGAACTCCAACTACAACTTAAAG-TAGATGTAGCA
1 GAGAGAAGCTGAGGTCCAAAGAAAATATGAAGAACTCCAACTACAACTTAAAGCT-GATGCAGCA
* *
41609153 GCAAGGGAAGTAGAGGCAGTAGC
65 ACAAGGGAAGCAGAGGCAGTAGC
* * *
41609176 GAGAGAAGCTGATGTTCAAAGAAAATATGAAGAACTTCAACTACAACTTAAAGCTGATGCAGCAA
1 GAGAGAAGCTGAGGTCCAAAGAAAATATGAAGAACTCCAACTACAACTTAAAGCTGATGCAGCAA
41609241 CAAGGGAAGCAGAGGC
66 CAAGGGAAGCAGAGGC
41609257 TGCAGCGCGG
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
87 73 0.99
88 1 0.01
ACGTcount: A:0.43, C:0.15, G:0.26, T:0.15
Consensus pattern (87 bp):
GAGAGAAGCTGAGGTCCAAAGAAAATATGAAGAACTCCAACTACAACTTAAAGCTGATGCAGCAA
CAAGGGAAGCAGAGGCAGTAGC
Found at i:41609621 original size:43 final size:43
Alignment explanation
Indices: 41609581--41609683 Score: 179
Period size: 43 Copynumber: 2.4 Consensus size: 43
41609571 TAAAAAAAAA
*
41609581 GCCGCTAAAAGTCATGATCTATAGCGGCGTTTGGGGAAAAAGT
1 GCCGCTAAAAGTCATGATCTATAGCGGCGTTTGCGGAAAAAGT
41609624 GCCGCTAAAAGTCATGATCTATAGCGGCGTTTGCGGAAAAAGT
1 GCCGCTAAAAGTCATGATCTATAGCGGCGTTTGCGGAAAAAGT
**
41609667 GCCGCTAATGGTCATGA
1 GCCGCTAAAAGTCATGA
41609684 CTTTTAGTGG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 57 1.00
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.23
Consensus pattern (43 bp):
GCCGCTAAAAGTCATGATCTATAGCGGCGTTTGCGGAAAAAGT
Found at i:41612643 original size:39 final size:39
Alignment explanation
Indices: 41612589--41612676 Score: 158
Period size: 39 Copynumber: 2.3 Consensus size: 39
41612579 AACAACTAAG
41612589 TTCCAAATACCATATGCTAAAATCATCCTTTTATGCCAA
1 TTCCAAATACCATATGCTAAAATCATCCTTTTATGCCAA
*
41612628 TTCCAAATACCATATGCTAAAATCATCCTTTTATGCCAC
1 TTCCAAATACCATATGCTAAAATCATCCTTTTATGCCAA
*
41612667 TTTCAAATAC
1 TTCCAAATAC
41612677 AAAACATATT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.35, C:0.26, G:0.05, T:0.34
Consensus pattern (39 bp):
TTCCAAATACCATATGCTAAAATCATCCTTTTATGCCAA
Found at i:41613386 original size:29 final size:29
Alignment explanation
Indices: 41613352--41613430 Score: 88
Period size: 28 Copynumber: 2.8 Consensus size: 29
41613342 CGATACATAG
*
41613352 TACCTGAAACTGTAATCACCAGCACTAAC
1 TACCTGAAACTGTAATCACCAGCACAAAC
* ** * *
41613381 TGCCTGAAACTGTAA-CACTGGTACAAAG
1 TACCTGAAACTGTAATCACCAGCACAAAC
*
41613409 TACCTGATACTGTAATCACCAG
1 TACCTGAAACTGTAATCACCAG
41613431 AAACTAGTGC
Statistics
Matches: 39, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
28 21 0.54
29 18 0.46
ACGTcount: A:0.35, C:0.27, G:0.15, T:0.23
Consensus pattern (29 bp):
TACCTGAAACTGTAATCACCAGCACAAAC
Found at i:41635026 original size:42 final size:43
Alignment explanation
Indices: 41634923--41635073 Score: 134
Period size: 43 Copynumber: 3.5 Consensus size: 43
41634913 AATGTGATAT
* * *
41634923 CGTGTAAGACCATGTCTGGGACGTTGGCATCGATTTGAGATTTA
1 CGTGTAAGACCCTGTCTGGGACATTGGCATCGATAT-AGATTTA
41634967 CGTGTAAGACCAC-GTCTGGGACATT-GCAATCG-TATATG-TTTA
1 CGTGTAAGACC-CTGTCTGGGACATTGGC-ATCGATATA-GATTTA
* * * *
41635009 CGTGTAAGACCCTGTCTGGGATAATGGCATCGTTAGTTGA-TTA
1 CGTGTAAGACCCTGTCTGGGACATTGGCATCGATA-TAGATTTA
*
41635052 CATGTAAGACCAC-GTCTGGGAC
1 CGTGTAAGACC-CTGTCTGGGAC
41635074 GTTGACATTG
Statistics
Matches: 90, Mismatches: 8, Indels: 19
0.77 0.07 0.16
Matches are distributed among these distances:
41 1 0.01
42 30 0.33
43 31 0.34
44 28 0.31
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.30
Consensus pattern (43 bp):
CGTGTAAGACCCTGTCTGGGACATTGGCATCGATATAGATTTA
Found at i:41635069 original size:43 final size:42
Alignment explanation
Indices: 41634964--41635072 Score: 125
Period size: 42 Copynumber: 2.6 Consensus size: 42
41634954 GATTTGAGAT
* * *
41634964 TTACGTGTAAGACCACGTCTGGGACATTGCAATCGTATATGT
1 TTACGTGTAAGACCACGTCTGGGAAATGGCAATCGTATATGA
41635006 TTACGTGTAAGACC-CTGTCTGGGATAATGGC-ATCGT-TAGTTGA
1 TTACGTGTAAGACCAC-GTCTGGGA-AATGGCAATCGTATA--TGA
*
41635049 TTACATGTAAGACCACGTCTGGGA
1 TTACGTGTAAGACCACGTCTGGGA
41635073 CGTTGACATT
Statistics
Matches: 58, Mismatches: 4, Indels: 9
0.82 0.06 0.13
Matches are distributed among these distances:
41 3 0.05
42 27 0.47
43 27 0.47
44 1 0.02
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (42 bp):
TTACGTGTAAGACCACGTCTGGGAAATGGCAATCGTATATGA
Found at i:41638333 original size:18 final size:18
Alignment explanation
Indices: 41638296--41638347 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
41638286 TAGGGGTGTG
*
41638296 CAAAATTCGGGTAAAACCGA
1 CAAAATTC-GGT-TAACCGA
41638316 CAAAATTCGGTTAACCGA
1 CAAAATTCGGTTAACCGA
**
41638334 CCGAATTCGGTTAA
1 CAAAATTCGGTTAA
41638348 TCGGTCAGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 18 0.62
19 3 0.10
20 8 0.28
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.21
Consensus pattern (18 bp):
CAAAATTCGGTTAACCGA
Found at i:41638549 original size:18 final size:18
Alignment explanation
Indices: 41638516--41638568 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
41638506 ATTCACCTAA
*
41638516 ACCCAATCCAAACCCAAGT
1 ACCCAA-CCCAACCCAAGT
* *
41638535 ATCCAACCCAACCCAATT
1 ACCCAACCCAACCCAAGT
41638553 ACCCAACCCAACCCAA
1 ACCCAACCCAACCCAA
41638569 CCCAATCATA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
18 25 0.83
19 5 0.17
ACGTcount: A:0.42, C:0.47, G:0.02, T:0.09
Consensus pattern (18 bp):
ACCCAACCCAACCCAAGT
Found at i:41639116 original size:20 final size:18
Alignment explanation
Indices: 41639092--41639143 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 18
41639082 AATAGTATTT
41639092 TATTAATTTAATATTAAA
1 TATTAATTTAATATTAAA
41639110 GTGATT-ATATTAATATTAAA
1 -T-ATTAAT-TTAATATTAAA
41639130 T-TTAATTTAATATT
1 TATTAATTTAATATT
41639144 TATCTTGATA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
17 10 0.33
18 2 0.07
19 4 0.13
20 14 0.47
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (18 bp):
TATTAATTTAATATTAAA
Found at i:41639184 original size:69 final size:68
Alignment explanation
Indices: 41639051--41639185 Score: 173
Period size: 69 Copynumber: 2.0 Consensus size: 68
41639041 TTTAATAGAT
* * *
41639051 TTAATATTAAATTAATTTTAATACTAATCCTAATAGTATTTTATTAATTTAATATTAAAGTGATT
1 TTAATATTAAATTAATTTTAATACTAATCCTAATAATATTGTATTAATTTAATATCAAAGTGATT
41639116 ATA
66 ATA
* * * * *
41639119 TTAATATTAAATTTAA-TTTAATATTTATCTTGATAAATATTGTATTAATTTAATATCAAATTGA
1 TTAATATTAAA-TTAATTTTAATACTAATCCTAAT-AATATTGTATTAATTTAATATCAAAGTGA
41639183 TTA
64 TTA
41639186 AGTCTAATCA
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
68 25 0.44
69 32 0.56
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.50
Consensus pattern (68 bp):
TTAATATTAAATTAATTTTAATACTAATCCTAATAATATTGTATTAATTTAATATCAAAGTGATT
ATA
Found at i:41639417 original size:36 final size:37
Alignment explanation
Indices: 41639363--41639436 Score: 141
Period size: 36 Copynumber: 2.0 Consensus size: 37
41639353 AAGTATAGAG
41639363 AAATTGCAAAAATTACCCTACTGGTAATTTTTGTGAA
1 AAATTGCAAAAATTACCCTACTGGTAATTTTTGTGAA
41639400 AAATTGC-AAAATTACCCTACTGGTAATTTTTGTGAA
1 AAATTGCAAAAATTACCCTACTGGTAATTTTTGTGAA
41639436 A
1 A
41639437 GTTTTTCTGA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
36 30 0.81
37 7 0.19
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.35
Consensus pattern (37 bp):
AAATTGCAAAAATTACCCTACTGGTAATTTTTGTGAA
Found at i:41644596 original size:26 final size:26
Alignment explanation
Indices: 41644567--41644785 Score: 201
Period size: 26 Copynumber: 8.4 Consensus size: 26
41644557 CATAGTCAAT
* *
41644567 TTGGTGAATTTGTTAGGTTAGCCTGG
1 TTGGTTAATTTGTTAGGTTAGCCAGG
* * *
41644593 TTGGTTAATCTATTAGGTTCGCCAGG
1 TTGGTTAATTTGTTAGGTTAGCCAGG
* * *
41644619 TTGGTTAATCTGCTAGGTTTGCCAGG
1 TTGGTTAATTTGTTAGGTTAGCCAGG
* *
41644645 TTAGTTAATTTGTTAGGTTTGCCAGG
1 TTGGTTAATTTGTTAGGTTAGCCAGG
41644671 TTGGTTAATTTGTTAGGTTCA-CCAGG
1 TTGGTTAATTTGTTAGGTT-AGCCAGG
* * *
41644697 TTGTTTAATTTGTTAAGTTCA-CTAGG
1 TTGGTTAATTTGTTAGGTT-AGCCAGG
* * *
41644723 TTGGTTAATCTATTAGGTTCA-CCAAG
1 TTGGTTAATTTGTTAGGTT-AGCCAGG
** **
41644749 TTGGTTAACATGTTAGGTTTTCCAGG
1 TTGGTTAATTTGTTAGGTTAGCCAGG
*
41644775 TTTGTTAATTT
1 TTGGTTAATTT
41644786 TTTGAAGTGT
Statistics
Matches: 161, Mismatches: 30, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
26 161 1.00
ACGTcount: A:0.20, C:0.11, G:0.26, T:0.44
Consensus pattern (26 bp):
TTGGTTAATTTGTTAGGTTAGCCAGG
Found at i:41646150 original size:16 final size:16
Alignment explanation
Indices: 41646129--41646160 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
41646119 TTTATGTTTG
41646129 ACCTAAGGTAAGTATA
1 ACCTAAGGTAAGTATA
41646145 ACCTAAGGTAAGTATA
1 ACCTAAGGTAAGTATA
41646161 CATATTCTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.12, G:0.19, T:0.25
Consensus pattern (16 bp):
ACCTAAGGTAAGTATA
Found at i:41661211 original size:11 final size:11
Alignment explanation
Indices: 41661147--41661258 Score: 56
Period size: 11 Copynumber: 9.8 Consensus size: 11
41661137 TTCAAAAAAA
*
41661147 TAATATTATTT
1 TAATATTAATT
41661158 TAATAAATTTAATT
1 TAAT--A-TTAATT
41661172 TAATACTT-ATCT
1 TAATA-TTAAT-T
*
41661184 TAATAGT-ATT
1 TAATATTAATT
41661194 T--TATTAATT
1 TAATATTAATT
41661203 TAATATTAAAGTT
1 TAATATT-AA-TT
* *
41661216 ATTATCTTAATAT
1 -TAATATTAAT-T
41661229 TAA-ATTTAATT
1 TAATA-TTAATT
41661240 TAAT-TTAATT
1 TAATATTAATT
41661250 TAATATTAA
1 TAATATTAA
41661259 AGTAATTATG
Statistics
Matches: 79, Mismatches: 8, Indels: 28
0.69 0.07 0.24
Matches are distributed among these distances:
8 3 0.04
9 4 0.05
10 12 0.15
11 21 0.27
12 19 0.24
13 6 0.08
14 14 0.18
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.54
Consensus pattern (11 bp):
TAATATTAATT
Found at i:41661219 original size:20 final size:20
Alignment explanation
Indices: 41661194--41661252 Score: 68
Period size: 20 Copynumber: 2.9 Consensus size: 20
41661184 TAATAGTATT
41661194 TTATTAATTTAATATTAAAG
1 TTATTAATTTAATATTAAAG
*
41661214 TTATT-ATCTTAATATTAAAT
1 TTATTAAT-TTAATATTAAAG
41661234 TTAATTTAATTTAAT-TTAA
1 TT-A-TTAATTTAATATTAA
41661253 TATTAAAGTA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
19 2 0.06
20 18 0.53
21 5 0.15
22 7 0.21
23 2 0.06
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (20 bp):
TTATTAATTTAATATTAAAG
Found at i:41668868 original size:17 final size:17
Alignment explanation
Indices: 41668848--41668944 Score: 60
Period size: 17 Copynumber: 5.7 Consensus size: 17
41668838 ATTTTAATAG
41668848 ATTTAATATTTAATTTA
1 ATTTAATATTTAATTTA
*
41668865 ATTTAATGTTT-ATCTTA
1 ATTTAATATTTAAT-TTA
* *
41668882 A--TAGTATTTCA-TTA
1 ATTTAATATTTAATTTA
*
41668896 ATTTAATATTAAAGTGATT-
1 ATTTAATATTTAA-T--TTA
*
41668915 ATATTAATATTAAATTTA
1 AT-TTAATATTTAATTTA
*
41668933 ATTTAATGTTTA
1 ATTTAATATTTA
41668945 TCTCATAGAT
Statistics
Matches: 62, Mismatches: 8, Indels: 20
0.69 0.09 0.22
Matches are distributed among these distances:
14 4 0.06
15 6 0.10
16 10 0.16
17 24 0.39
18 2 0.03
19 3 0.05
20 13 0.21
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.54
Consensus pattern (17 bp):
ATTTAATATTTAATTTA
Found at i:41668987 original size:62 final size:59
Alignment explanation
Indices: 41668918--41669034 Score: 180
Period size: 62 Copynumber: 1.9 Consensus size: 59
41668908 AGTGATTATA
* * *
41668918 TTAATATTAAATTTAATTTAATGTTTATCTCATAGATAAATATTCTATTAATTTAATAAGAC
1 TTAATATTAAATTTAATCTAATATTTATCT--T-GATAAATATTATATTAATTTAATAAGAC
41668980 TTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTAATTTAATA
1 TTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTAATTTAATA
41669035 TTAAAGTGAT
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
59 23 0.44
60 1 0.02
62 28 0.54
ACGTcount: A:0.43, C:0.05, G:0.03, T:0.49
Consensus pattern (59 bp):
TTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTAATTTAATAAGAC
Found at i:41672489 original size:13 final size:14
Alignment explanation
Indices: 41672465--41672513 Score: 59
Period size: 13 Copynumber: 3.6 Consensus size: 14
41672455 AATTCCACTA
41672465 AAAATTTAAAAAATT
1 AAAA-TTAAAAAATT
*
41672480 AAGA-T-AAAAATT
1 AAAATTAAAAAATT
41672492 AAAATTAAAAAA-T
1 AAAATTAAAAAATT
41672505 AAAATTAAA
1 AAAATTAAA
41672514 GAAAAATTAC
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
12 10 0.33
13 12 0.40
14 5 0.17
15 3 0.10
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (14 bp):
AAAATTAAAAAATT
Found at i:41675162 original size:38 final size:39
Alignment explanation
Indices: 41675101--41675180 Score: 135
Period size: 38 Copynumber: 2.1 Consensus size: 39
41675091 CAACCCAACC
*
41675101 CTACCCAATTATCCAACCCAATAAAACTAAAACTAAAGT
1 CTACCCAATTATCCAACCCAATAAAAATAAAACTAAAGT
*
41675140 CTACCCAATTA-CCAACCTAATAAAAATAAAACTAAAGT
1 CTACCCAATTATCCAACCCAATAAAAATAAAACTAAAGT
41675178 CTA
1 CTA
41675181 ACTCTTAAGT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
38 28 0.72
39 11 0.28
ACGTcount: A:0.50, C:0.26, G:0.03, T:0.21
Consensus pattern (39 bp):
CTACCCAATTATCCAACCCAATAAAAATAAAACTAAAGT
Found at i:41675396 original size:9 final size:9
Alignment explanation
Indices: 41675382--41675412 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
41675372 GTAATGATTC
*
41675382 AATTCGGGT
1 AATTCGGTT
41675391 AATTCGGTT
1 AATTCGGTT
41675400 AATTCGGTT
1 AATTCGGTT
41675409 AATT
1 AATT
41675413 TTTAACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.26, C:0.10, G:0.23, T:0.42
Consensus pattern (9 bp):
AATTCGGTT
Found at i:41676186 original size:22 final size:21
Alignment explanation
Indices: 41676133--41676189 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
41676123 TCAAAGTTTG
*
41676133 ATGTCTCGAGACAAAGGTATC
1 ATGTCTCGAGACAAAGGTACC
* *
41676154 ATGTCTTGAGACAAA-GTCCCC
1 ATGTCTCGAGACAAAGGT-ACC
41676175 TATGTCTCGAGACAA
1 -ATGTCTCGAGACAA
41676190 TACCTCATGT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 2 0.07
21 15 0.50
22 13 0.43
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.25
Consensus pattern (21 bp):
ATGTCTCGAGACAAAGGTACC
Found at i:41682628 original size:106 final size:107
Alignment explanation
Indices: 41682407--41682689 Score: 345
Period size: 106 Copynumber: 2.7 Consensus size: 107
41682397 TAAAGTTGAT
* * *
41682407 GAAATTCTAAATAAACCAAACAAAACCCATCACTCATTTACAACTTTTTAGTCTTGCTTTCAGAA
1 GAAATTTTAAATAAACCAAACAAAACCCATCACTTATTTACAAC-TTTTAGTCTTCCTTTCAGAA
* * * * * *
41682472 TGTATCAAACCATGGAGTCTGCAATTGCAATGTCAGAGTTGAT
65 TGTATCAAACCATGGAATCAGCAAATGCAATATCAGAGTTCAC
* * * * * * * *
41682515 GAAATTTTAAAAAAACCAAACAAAACCAACCACTTATTTACTACATTTAATCTTCCATTCAGTAT
1 GAAATTTTAAATAAACCAAACAAAACCCATCACTTATTTACAACTTTTAGTCTTCCTTTCAGAAT
* *
41682580 GTATC-AACCATGGAATCAGCAAATGCAATATTATAGTTCAC
66 GTATCAAACCATGGAATCAGCAAATGCAATATCAGAGTTCAC
* * *
41682621 GAAATTTTAAATAAACCAAGC-AAACCCATCACTTATTCACAACTTTTAGTCTTTCTTTCAGAAT
1 GAAATTTTAAATAAACCAAACAAAACCCATCACTTATTTACAACTTTTAGTCTTCCTTTCAGAAT
41682685 GTATC
66 GTATC
41682690 GGCCATGTAG
Statistics
Matches: 145, Mismatches: 30, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
105 39 0.27
106 47 0.32
107 21 0.14
108 38 0.26
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.31
Consensus pattern (107 bp):
GAAATTTTAAATAAACCAAACAAAACCCATCACTTATTTACAACTTTTAGTCTTCCTTTCAGAAT
GTATCAAACCATGGAATCAGCAAATGCAATATCAGAGTTCAC
Found at i:41695178 original size:21 final size:21
Alignment explanation
Indices: 41695153--41695198 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
41695143 TGGTTTTTGC
*
41695153 CTTTAAACCTTTGTTTTATAA
1 CTTTAAACCCTTGTTTTATAA
*
41695174 CTTTAAACCCTTGTTTTATAC
1 CTTTAAACCCTTGTTTTATAA
41695195 CTTT
1 CTTT
41695199 TGATTGGTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.24, C:0.20, G:0.04, T:0.52
Consensus pattern (21 bp):
CTTTAAACCCTTGTTTTATAA
Found at i:41701783 original size:16 final size:18
Alignment explanation
Indices: 41701762--41701799 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
41701752 TAGGGGGAGC
*
41701762 GAATAAAA-AGTTGG-AT
1 GAATAAAATACTTGGAAT
41701778 GAATAAAATACTTGGAAT
1 GAATAAAATACTTGGAAT
41701796 GAAT
1 GAAT
41701800 TATTAGTATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 5 0.26
18 6 0.32
ACGTcount: A:0.50, C:0.03, G:0.21, T:0.26
Consensus pattern (18 bp):
GAATAAAATACTTGGAAT
Found at i:41703917 original size:5 final size:5
Alignment explanation
Indices: 41703907--41703943 Score: 56
Period size: 5 Copynumber: 7.4 Consensus size: 5
41703897 AAGTGTTTAG
* *
41703907 TAAAA TAAAA TAAAA TAAAA TAGAA TTAAA TAAAA TA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TA
41703944 TTAAAATAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (5 bp):
TAAAA
Found at i:41721552 original size:44 final size:44
Alignment explanation
Indices: 41721486--41721680 Score: 191
Period size: 44 Copynumber: 4.5 Consensus size: 44
41721476 CATATCAAAC
* * *
41721486 CTTATCTCCCTGAAGTTACAGTGGAGTAGGTTGAATATACCAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAACATACCAAT
* *
41721530 CTTATCTCCCTGAAGTTGCAGTGGAGCATGTTGAAGATACCAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAACATACCAAT
* * * * * * *
41721574 CATATCTCTCTGAAGTTGCAGTAGAGCA-GAT-CACAT-CAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAACATACCAAT
* * *
41721615 CTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTCAAGCA-ACTAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAA-CATACCAAT
** *
41721659 AATATCTCCCTAAAGTTGCAGT
1 CTTATCTCCCTGAAGTTGCAGT
41721681 ATTACGTTTT
Statistics
Matches: 125, Mismatches: 22, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
41 27 0.22
42 5 0.04
43 3 0.02
44 90 0.72
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAACATACCAAT
Found at i:41721665 original size:129 final size:129
Alignment explanation
Indices: 41721447--41721680 Score: 335
Period size: 129 Copynumber: 1.8 Consensus size: 129
41721437 TAACATGTCT
* * * *
41721447 TATCTCTCTTAATTTGCAGTAAAGCAGATCATATCAAACCTTATCTCCCTGAAGTTACAGTGGAG
1 TATCTCTCTGAAGTTGCAGTAAAGCAGATCACATCAAACCTTATCTCCCTAAAGTTACAGTGGAG
* * * ** *
41721512 TAGGTTGAATATACCAATCTTATCTCCCTGAAGTTGCAGTGGAGCATGTTGAAGATACCAATCA
66 CAGGTTCAACATACCAATAATATCTCCCTAAAGTTGCAGTGGAGCATGTTGAAGATACCAATCA
* *
41721576 TATCTCTCTGAAGTTGCAGTAGAGCAGATCACATCAAACCTTATCTCCCTAAAGTTGCAGTGGAG
1 TATCTCTCTGAAGTTGCAGTAAAGCAGATCACATCAAACCTTATCTCCCTAAAGTTACAGTGGAG
*
41721641 CAGGTTCAAGCA-ACTAATAATATCTCCCTAAAGTTGCAGT
66 CAGGTTCAA-CATACCAATAATATCTCCCTAAAGTTGCAGT
41721681 ATTACGTTTT
Statistics
Matches: 91, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
129 90 0.99
130 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.29
Consensus pattern (129 bp):
TATCTCTCTGAAGTTGCAGTAAAGCAGATCACATCAAACCTTATCTCCCTAAAGTTACAGTGGAG
CAGGTTCAACATACCAATAATATCTCCCTAAAGTTGCAGTGGAGCATGTTGAAGATACCAATCA
Found at i:41722569 original size:15 final size:16
Alignment explanation
Indices: 41722549--41722578 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
41722539 ATAATTTACA
41722549 AATTG-TTGCATATTG
1 AATTGTTTGCATATTG
41722564 AATTGTTTGCATATT
1 AATTGTTTGCATATT
41722579 TGAAGTATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.27, C:0.07, G:0.17, T:0.50
Consensus pattern (16 bp):
AATTGTTTGCATATTG
Found at i:41726709 original size:14 final size:14
Alignment explanation
Indices: 41726690--41726717 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
41726680 TGGGTGCAAC
41726690 TTATTACTTTGGAT
1 TTATTACTTTGGAT
41726704 TTATTACTTTGGAT
1 TTATTACTTTGGAT
41726718 ATGTGTATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.07, G:0.14, T:0.57
Consensus pattern (14 bp):
TTATTACTTTGGAT
Found at i:41733910 original size:6 final size:6
Alignment explanation
Indices: 41733901--41733946 Score: 83
Period size: 6 Copynumber: 7.7 Consensus size: 6
41733891 AAGAAAAAGA
*
41733901 AAAATC AAAATC AAAGTC AAAATC AAAATC AAAATC AAAATC AAAA
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAA
41733947 AAAGAAGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.67, C:0.15, G:0.02, T:0.15
Consensus pattern (6 bp):
AAAATC
Found at i:41733970 original size:45 final size:46
Alignment explanation
Indices: 41733919--41734012 Score: 122
Period size: 45 Copynumber: 2.1 Consensus size: 46
41733909 AATCAAAGTC
41733919 AAAATCAAAATCAAAATCAAAATCA-AAAAA-AGAAGAAAGAA-GAAA
1 AAAATCAAAATCAAAATCAAAATCAGAAAAATA-AAG-AAGAATGAAA
* * *
41733964 AAAATCAAGATCAAAATGAAAATGAGAAAAATAAAGAAGAATGAAA
1 AAAATCAAAATCAAAATCAAAATCAGAAAAATAAAGAAGAATGAAA
41734010 AAA
1 AAA
41734013 GAGAAATCTA
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
45 27 0.63
46 15 0.35
47 1 0.02
ACGTcount: A:0.71, C:0.06, G:0.12, T:0.11
Consensus pattern (46 bp):
AAAATCAAAATCAAAATCAAAATCAGAAAAATAAAGAAGAATGAAA
Found at i:41734947 original size:12 final size:13
Alignment explanation
Indices: 41734930--41734969 Score: 55
Period size: 12 Copynumber: 3.1 Consensus size: 13
41734920 GAAAATATGA
41734930 AAAATGAAAAT-G
1 AAAATGAAAATGG
*
41734942 AAAATGGAAATGG
1 AAAATGAAAATGG
41734955 AAAATGAAAAATGG
1 AAAATG-AAAATGG
41734969 A
1 A
41734970 GAGGCTAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 10 0.42
13 7 0.29
14 7 0.29
ACGTcount: A:0.62, C:0.00, G:0.23, T:0.15
Consensus pattern (13 bp):
AAAATGAAAATGG
Found at i:41734967 original size:7 final size:6
Alignment explanation
Indices: 41734930--41734964 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
41734920 GAAAATATGA
*
41734930 AAAATG AAAATG AAAATG GAAATGG AAAATG AAAA
1 AAAATG AAAATG AAAATG AAAAT-G AAAATG AAAA
41734965 ATGGAGAGGC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
6 21 0.81
7 5 0.19
ACGTcount: A:0.66, C:0.00, G:0.20, T:0.14
Consensus pattern (6 bp):
AAAATG
Found at i:41736350 original size:85 final size:85
Alignment explanation
Indices: 41736184--41736350 Score: 264
Period size: 85 Copynumber: 2.0 Consensus size: 85
41736174 TGAAGATAGC
* * * *
41736184 AGATCTTGCCTTCCTGCATTGACAGTGAAGCAGATCGAAACAAAGCCTTGCCTCTATCGGTTGCA
1 AGATCTTACCTTCCTGCATTAACAGCGAAGCAGATCGAAACAAAGCCTTGCCTCCATCGGTTGCA
*
41736249 GTGGAGCTGGTTAAAGAAGT
66 GTGGAGCTGGTGAAAGAAGT
*
41736269 AGATCTTACCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAATCCTTGCCTCCATCGGTTGC
1 AGATCTTACCTTCCTGCATTAACAGCGAAGCAGATCG-AAACAAAGCCTTGCCTCCATCGGTTGC
41736334 AGTGGAGCT-GTGAAAGA
65 AGTGGAGCTGGTGAAAGA
41736351 TAGCAGATAT
Statistics
Matches: 75, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
85 41 0.55
86 34 0.45
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.25
Consensus pattern (85 bp):
AGATCTTACCTTCCTGCATTAACAGCGAAGCAGATCGAAACAAAGCCTTGCCTCCATCGGTTGCA
GTGGAGCTGGTGAAAGAAGT
Found at i:41736385 original size:86 final size:85
Alignment explanation
Indices: 41736176--41736390 Score: 283
Period size: 86 Copynumber: 2.5 Consensus size: 85
41736166 TAGATCAGTG
*
41736176 AAGATAGCAGATCTTGCCTTCCTGCATTGACAGTGAAGCAGATCGAAACAAAGCCTTGCCTCTAT
1 AAGATAGCAGATCTTGCCTTCCT-CATTGACAGTGAAGCAGATCGAAACAAAGCCTTGCCTCCAT
*
41736241 CGGTTGCAGTGGAGCTGGTTA
65 CGGTTGCAGTGGAGCTGGTGA
* * * * *
41736262 AAGA-AGTAGATCTTACCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAATCCTTGCCTCCA
1 AAGATAGCAGATCTTGCCTTCCT-CATTGACAGTGAAGCAGATCG-AAACAAAGCCTTGCCTCCA
41736326 TCGGTTGCAGTGGAGCT-GTGA
64 TCGGTTGCAGTGGAGCTGGTGA
* *
41736347 AAGATAGCAGATATTGCCCTCCT-ATGTCGACAGTGAAGCAGATC
1 AAGATAGCAGATCTTGCCTTCCTCAT-T-GACAGTGAAGCAGATC
41736391 AAAGATTACA
Statistics
Matches: 112, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
84 2 0.02
85 44 0.39
86 66 0.59
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.24
Consensus pattern (85 bp):
AAGATAGCAGATCTTGCCTTCCTCATTGACAGTGAAGCAGATCGAAACAAAGCCTTGCCTCCATC
GGTTGCAGTGGAGCTGGTGA
Found at i:41736680 original size:45 final size:44
Alignment explanation
Indices: 41736573--41736682 Score: 123
Period size: 44 Copynumber: 2.5 Consensus size: 44
41736563 TGAAGAAGTA
* * * * *
41736573 AATCTTATTTCCCTGAGGTTGTAGTGGAGCAGATTGAATTCGAT
1 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGTCAAT
* *
41736617 AATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGT-AAT
1 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGTCAAT
*
41736660 AAGATCTTATCTCTCTGAAGTTG
1 -A-ATCTTATCTCCCTGAAGTTG
41736683 CAGCAGAGCA
Statistics
Matches: 55, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
43 2 0.04
44 35 0.64
45 18 0.33
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGTCAAT
Found at i:41736998 original size:16 final size:16
Alignment explanation
Indices: 41736977--41737007 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
41736967 GGCCCGTCAA
41736977 TAAAATAAAACCAAAT
1 TAAAATAAAACCAAAT
*
41736993 TAAAATTAAACCAAA
1 TAAAATAAAACCAAA
41737008 AAAAAGGGTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.13, G:0.00, T:0.19
Consensus pattern (16 bp):
TAAAATAAAACCAAAT
Found at i:41742948 original size:11 final size:11
Alignment explanation
Indices: 41742932--41742983 Score: 52
Period size: 11 Copynumber: 4.8 Consensus size: 11
41742922 TTTTATACTA
41742932 AATAAAATATT
1 AATAAAATATT
*
41742943 AATAAAATAAT
1 AATAAAATATT
* *
41742954 AAT-ATATCTT
1 AATAAAATATT
*
41742964 ATTAAAATATT
1 AATAAAATATT
*
41742975 AATTAAATA
1 AATAAAATA
41742984 ATATTTATCT
Statistics
Matches: 31, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
10 6 0.19
11 25 0.81
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (11 bp):
AATAAAATATT
Found at i:41742970 original size:32 final size:31
Alignment explanation
Indices: 41742925--41743013 Score: 103
Period size: 32 Copynumber: 2.9 Consensus size: 31
41742915 CTTTCCTTTT
*
41742925 TATA-CTAAATAAAATATTAATAAAATAATAA
1 TATATCTAATTAAAATATTAATAAAATAAT-A
* *
41742956 TATATCTTATTAAAATATTAATTAAATAATA
1 TATATCTAATTAAAATATTAATAAAATAATA
*
41742987 TTTATCTAATT-AAATAATT-ATAAAATA
1 TATATCTAATTAAAAT-ATTAATAAAATA
41743014 TCATCAAAAT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
30 11 0.22
31 17 0.34
32 22 0.44
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.40
Consensus pattern (31 bp):
TATATCTAATTAAAATATTAATAAAATAATA
Found at i:41746035 original size:46 final size:46
Alignment explanation
Indices: 41745968--41746055 Score: 140
Period size: 46 Copynumber: 1.9 Consensus size: 46
41745958 TATTGCAATT
* *
41745968 AGAGTTTTAGTTTTATTTATTTTCTTTATTACATCAGGTTTTGTTA
1 AGAGTTTTAGTTTTACTTATTTTCTCTATTACATCAGGTTTTGTTA
* *
41746014 AGAGTTTTAGTTTTACTTATTTTCTCTATTATATTAGGTTTT
1 AGAGTTTTAGTTTTACTTATTTTCTCTATTACATCAGGTTTT
41746056 TACTTCCTTC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.22, C:0.07, G:0.12, T:0.59
Consensus pattern (46 bp):
AGAGTTTTAGTTTTACTTATTTTCTCTATTACATCAGGTTTTGTTA
Found at i:41747269 original size:21 final size:21
Alignment explanation
Indices: 41747244--41747286 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
41747234 ACATGAACCA
41747244 AATTT-AATGTTAAGTGTGAAC
1 AATTTCAATGTT-AGTGTGAAC
*
41747265 AATTTCATTGTTAGTGTGAAC
1 AATTTCAATGTTAGTGTGAAC
41747286 A
1 A
41747287 CATCTAGATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.35, C:0.07, G:0.19, T:0.40
Consensus pattern (21 bp):
AATTTCAATGTTAGTGTGAAC
Found at i:41748537 original size:30 final size:32
Alignment explanation
Indices: 41748477--41748540 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
41748467 CACTTATTTT
41748477 CACCTATGCCGAATGCATACACATAAATATATC
1 CACCTATGCCGAATGCA-ACACATAAATATATC
* *
41748510 CACCTATGCCGAATGCAACATATATATATAT
1 CACCTATGCCGAATGCAACACATAAATATAT
41748541 ATACATATCT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.39, C:0.25, G:0.09, T:0.27
Consensus pattern (32 bp):
CACCTATGCCGAATGCAACACATAAATATATC
Found at i:41748802 original size:41 final size:41
Alignment explanation
Indices: 41748757--41748953 Score: 308
Period size: 41 Copynumber: 4.8 Consensus size: 41
41748747 ACCGGCTCTT
*
41748757 AGCCTGCTAGACTTATAGTCCGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
41748798 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
*
41748839 AGCCTGGTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
41748880 AGCCTGCTAGACTTATAGTCTGAATAAT-T-TCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTG-A-AATGTGTCACCGGCATTA
* * * *
41748921 AGCCTGCTAGACGTAAAGTCTGAATTATGTCAC
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCAC
41748954 TAACGATAAA
Statistics
Matches: 146, Mismatches: 6, Indels: 8
0.91 0.04 0.05
Matches are distributed among these distances:
39 2 0.01
40 2 0.01
41 137 0.94
42 2 0.01
43 3 0.02
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (41 bp):
AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
Found at i:41750853 original size:18 final size:20
Alignment explanation
Indices: 41750811--41750854 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
41750801 GTTGTTAAGC
*
41750811 ATGATGAATGGAGAGCAACA
1 ATGATTAATGGAGAGCAACA
*
41750831 ATGATTAAT-GAGATCAA-A
1 ATGATTAATGGAGAGCAACA
41750849 ATGATT
1 ATGATT
41750855 GAGAAAAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 7 0.32
19 7 0.32
20 8 0.36
ACGTcount: A:0.45, C:0.07, G:0.23, T:0.25
Consensus pattern (20 bp):
ATGATTAATGGAGAGCAACA
Found at i:41755751 original size:19 final size:19
Alignment explanation
Indices: 41755729--41755767 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
41755719 CGTTTTGCTA
41755729 TTCTGT-TTCTATTCTCTTT
1 TTCTGTCTTCTATT-TCTTT
*
41755748 TTCTGTCTTTTATTTCTTT
1 TTCTGTCTTCTATTTCTTT
41755767 T
1 T
41755768 ATTTAATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.05, C:0.18, G:0.05, T:0.72
Consensus pattern (19 bp):
TTCTGTCTTCTATTTCTTT
Found at i:41757413 original size:30 final size:30
Alignment explanation
Indices: 41757376--41757483 Score: 112
Period size: 30 Copynumber: 3.6 Consensus size: 30
41757366 ATTGAGAAGC
41757376 ATTTTTATATTAATTATATTATGA-AAAAG
1 ATTTTTATATTAATTATATTATGAGAAAAG
* * * * *
41757405 AATGTTTATATTTATTGTATTATGATAAAAT
1 -ATTTTTATATTAATTATATTATGAGAAAAG
* **
41757436 ATTTTTACATTAATTACGTTATGAGAAAATG
1 ATTTTTATATTAATTATATTATGAGAAAA-G
41757467 -TTTTTATATTAATTATA
1 ATTTTTATATTAATTATA
41757484 GGAATAATAT
Statistics
Matches: 61, Mismatches: 15, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
30 57 0.93
31 4 0.07
ACGTcount: A:0.40, C:0.02, G:0.08, T:0.50
Consensus pattern (30 bp):
ATTTTTATATTAATTATATTATGAGAAAAG
Found at i:41765618 original size:30 final size:31
Alignment explanation
Indices: 41765579--41765638 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
41765569 GGAGGTGGGA
*
41765579 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
41765610 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
41765639 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:41765866 original size:9 final size:9
Alignment explanation
Indices: 41765852--41765888 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
41765842 TATAGTTTGA
41765852 TATTCGAAT
1 TATTCGAAT
41765861 TATTCGAAT
1 TATTCGAAT
*
41765870 TATTCGAGT
1 TATTCGAAT
41765879 TATTCGAAT
1 TATTCGAAT
41765888 T
1 T
41765889 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:41767586 original size:9 final size:9
Alignment explanation
Indices: 41767557--41767593 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
41767547 TGAGTTTTCG
41767557 AATTCGAAT
1 AATTCGAAT
*
41767566 AACTCGAAT
1 AATTCGAAT
41767575 AATTCGAAT
1 AATTCGAAT
*
41767584 AATTCAAAT
1 AATTCGAAT
41767593 A
1 A
41767594 TCAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:41771870 original size:3 final size:3
Alignment explanation
Indices: 41771862--41771901 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
41771852 GTGATTGGCT
41771862 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
41771902 AGCTTCTGAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:41787365 original size:19 final size:19
Alignment explanation
Indices: 41787338--41787380 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
41787328 TGTATTCTAA
* *
41787338 ATATTGTATAAAATCATGT
1 ATATAGTATAAAATCATAT
* *
41787357 ATATAGTATGAAATTATAT
1 ATATAGTATAAAATCATAT
41787376 ATATA
1 ATATA
41787381 TTTAATATTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.47, C:0.02, G:0.09, T:0.42
Consensus pattern (19 bp):
ATATAGTATAAAATCATAT
Found at i:41799285 original size:27 final size:26
Alignment explanation
Indices: 41799229--41799498 Score: 260
Period size: 27 Copynumber: 10.2 Consensus size: 26
41799219 GATTCTTGGG
41799229 AAAATGACCGAAATACCCCGAAGGGT
1 AAAATGACCGAAATACCCCGAAGGGT
*
41799255 AAAATGATCGAAATACCCTCGAAGGGT
1 AAAATGACCGAAATACCC-CGAAGGGT
* *
41799282 AAAATGATCGAAATACCCTCGAGGGGT
1 AAAATGACCGAAATACCC-CGAAGGGT
* * *
41799309 AAAATGACCAAAATACCCTCGAATGAT
1 AAAATGACCGAAATACCC-CGAAGGGT
** *
41799336 AAAATGATTGAACTACCCCAGAAGGGT
1 AAAATGACCGAAATACCCC-GAAGGGT
41799363 -AAATGACCGAAATACCCC-AGAGGAGT
1 AAAATGACCGAAATACCCCGA-AGG-GT
* *
41799389 AAAATAACCGAAATAACCCCAAAGGGT
1 AAAATGACCGAAAT-ACCCCGAAGGGT
**
41799416 -AAATGACCGAAATACCTTTGAA-GGT
1 AAAATGACCGAAATACC-CCGAAGGGT
* **
41799441 AAAATAACTTAAATACCCCGAAGGGT
1 AAAATGACCGAAATACCCCGAAGGGT
* * *
41799467 AACATGACCGAAATACCTCTGAAGGGC
1 AAAATGACCGAAATACC-CCGAAGGGT
41799494 AAAAT
1 AAAAT
41799499 AACTGTTATA
Statistics
Matches: 200, Mismatches: 33, Indels: 21
0.79 0.13 0.08
Matches are distributed among these distances:
24 1 0.00
25 12 0.06
26 78 0.39
27 100 0.50
28 8 0.04
29 1 0.00
ACGTcount: A:0.43, C:0.20, G:0.20, T:0.17
Consensus pattern (26 bp):
AAAATGACCGAAATACCCCGAAGGGT
Found at i:41799294 original size:53 final size:53
Alignment explanation
Indices: 41799229--41799498 Score: 282
Period size: 53 Copynumber: 5.1 Consensus size: 53
41799219 GATTCTTGGG
*
41799229 AAAATGACCGAAATACCCCGAAGGGTAAAATGATCGAAATACCCTCGAAGGGT
1 AAAATGACCGAAATACCCCGAAGGGTAAAATGACCGAAATACCCTCGAAGGGT
* * * * *
41799282 AAAATGATCGAAATACCCTCGAGGGGTAAAATGACCAAAATACCCTCGAATGAT
1 AAAATGACCGAAATACCC-CGAAGGGTAAAATGACCGAAATACCCTCGAAGGGT
** *
41799336 AAAATGATTGAACTACCCCAGAAGGGT-AAATGACCGAAATACCC-C-AGAGGAGT
1 AAAATGACCGAAATACCCC-GAAGGGTAAAATGACCGAAATACCCTCGA-AGG-GT
* * * *
41799389 AAAATAACCGAAATAACCCCAAAGGGT-AAATGACCGAAATACCTTTGAA-GGT
1 AAAATGACCGAAAT-ACCCCGAAGGGTAAAATGACCGAAATACCCTCGAAGGGT
* ** * *
41799441 AAAATAACTTAAATACCCCGAAGGGTAACATGACCGAAATA-CCTCTGAAGGGC
1 AAAATGACCGAAATACCCCGAAGGGTAAAATGACCGAAATACCCTC-GAAGGGT
41799494 AAAAT
1 AAAAT
41799499 AACTGTTATA
Statistics
Matches: 181, Mismatches: 26, Indels: 20
0.80 0.11 0.09
Matches are distributed among these distances:
51 14 0.08
52 33 0.18
53 75 0.41
54 58 0.32
55 1 0.01
ACGTcount: A:0.43, C:0.20, G:0.20, T:0.17
Consensus pattern (53 bp):
AAAATGACCGAAATACCCCGAAGGGTAAAATGACCGAAATACCCTCGAAGGGT
Found at i:41799374 original size:80 final size:80
Alignment explanation
Indices: 41799229--41799483 Score: 263
Period size: 80 Copynumber: 3.2 Consensus size: 80
41799219 GATTCTTGGG
* *
41799229 AAAATGACCGAAATACCCCGAAGGGTAAAATGATCGAAATACCCTCGAAGGGTAAAATGATCGAA
1 AAAATGACCGAAATACCCCGAAGGATAAAATGATCGAAATACCCTCGAAGGGTAAAATGACCGAA
*
41799294 ATACCCTC-GAGGGGT
66 ATACCC-CAGAGGAGT
* * * *
41799309 AAAATGACCAAAATACCCTCGAATGATAAAATGATTGAACTACCC-CAGAAGGGT-AAATGACCG
1 AAAATGACCGAAATACCC-CGAAGGATAAAATGATCGAAATACCCTC-GAAGGGTAAAATGACCG
41799372 AAATACCCCAGAGGAGT
64 AAATACCCCAGAGGAGT
* * * * * * * **
41799389 AAAATAACCGAAATAACCCCAAAGGGT-AAATGACCGAAATACCTTTGAA-GGTAAAATAACTTA
1 AAAATGACCGAAAT-ACCCCGAAGGATAAAATGATCGAAATACCCTCGAAGGGTAAAATGACCGA
41799452 AATACCCC-GAAGG-GT
65 AATACCCCAG-AGGAGT
*
41799467 AACATGACCGAAATACC
1 AAAATGACCGAAATACC
41799484 TCTGAAGGGC
Statistics
Matches: 146, Mismatches: 22, Indels: 17
0.79 0.12 0.09
Matches are distributed among these distances:
77 3 0.02
78 18 0.12
79 35 0.24
80 57 0.39
81 33 0.23
ACGTcount: A:0.44, C:0.21, G:0.19, T:0.16
Consensus pattern (80 bp):
AAAATGACCGAAATACCCCGAAGGATAAAATGATCGAAATACCCTCGAAGGGTAAAATGACCGAA
ATACCCCAGAGGAGT
Found at i:41801635 original size:47 final size:48
Alignment explanation
Indices: 41801563--41801660 Score: 114
Period size: 47 Copynumber: 2.0 Consensus size: 48
41801553 ACTTTAATTT
* *
41801563 TTTTTATATATTACAATCATATATTAGCGT-TAAATTTCATTATGTATTA
1 TTTTTATATATTACAATCATATATTAACATATAAATTT--TTATGTATTA
41801612 TTTTTA-A-ATTACAAT-ATATTATTAACATCATAAATTTTTATGTATTA
1 TTTTTATATATTACAATCATA-TATTAACAT-ATAAATTTTTATGTATTA
41801659 TT
1 TT
41801661 AGATTATATT
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
46 3 0.07
47 27 0.61
48 1 0.02
49 13 0.30
ACGTcount: A:0.37, C:0.07, G:0.04, T:0.52
Consensus pattern (48 bp):
TTTTTATATATTACAATCATATATTAACATATAAATTTTTATGTATTA
Found at i:41807902 original size:44 final size:42
Alignment explanation
Indices: 41807854--41808519 Score: 248
Period size: 44 Copynumber: 15.2 Consensus size: 42
41807844 GACAACGGAT
* *
41807854 CTTGCCTTCCTGCATTGACAACGAAGCAAATCGAAGACACAAGC
1 CTTGCCTTCCT-CATTGACAGCGAAGCAGATCGAAGACA-AAGC
** * * * * *
41807898 CTTGCC-TCTCTCAGTT-TTAGTGAAGCTGGTTGAAGACAACAGAT
1 CTTGCCTTC-CTCA-TTGACAGCGAAGCAGATCGAAGACAA-AG-C
*
41807942 CTTGCCTTCCTGCATTGACAACGAAGCAGATCGAAGACAGAAGC
1 CTTGCCTTCCT-CATTGACAGCGAAGCAGATCGAAGACA-AAGC
* * * * * *
41807986 CTTGCC-TCTCTCGGTTG-TAGTGGAGCTAG-TTGAAGACAACAGAT
1 CTTGCCTTC-CTC-ATTGACAGCGAAGC-AGATCGAAGACAA-AG-C
41808030 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAGC
1 CTTGCCTTCCT-CATTGACAGCGAAGCAGATCGAAGACA-AAGC
* * * * * *
41808074 CTTGCC-TCTCTCGGTTG-TAGCGAAGCTGGTTGAAGACAACAGAT
1 CTTGCCTTC-CTC-ATTGACAGCGAAGCAGATCGAAGACAA-AG-C
*
41808118 CTTGCCTTCCTACATTGACAGCGAAGCAGATCAAAGACACAAGC
1 CTTGCCTTCCT-CATTGACAGCGAAGCAGATCGAAGACA-AAGC
* * ** * * * * *
41808162 CTTGCC-TCACTCGGTTG-TAGTAAAGCTGGTTGAAGACAGCAGA
1 CTTGCCTTC-CTC-ATTGACAGCGAAGCAGATCGAAGACA-AAGC
*
41808205 CTTGCCTTCCTGCATTGACAGCGAAACAGATCGAAGACACAAGC
1 CTTGCCTTCCT-CATTGACAGCGAAGCAGATCGAAGACA-AAGC
* * * * * * * * * *
41808249 GTTACC-TCTCTCGGTTG-TAGTGGAGCTGGTTGAAGACAACAGAT
1 CTTGCCTTC-CTC-ATTGACAGCGAAGCAGATCGAAGACAA-AG-C
* * *
41808293 CTTGCTTTCCTGCATCGACAGGGAAGCAGATCGAAGACACAAGC
1 CTTGCCTTCCT-CATTGACAGCGAAGCAGATCGAAGACA-AAGC
* * * * * * ** *
41808337 CTTGCC-TCTCTCGGTTG-TAGTGGAGCTGGTTAAAGACAACAGAT
1 CTTGCCTTC-CTC-ATTGACAGCGAAGCAGATCGAAGACAA-AG-C
41808381 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAGC
1 CTTGCCTTCCT-CATTGACAGCGAAGCAGATCGAAGACA-AAGC
* * * * * **
41808425 CTTGCC-TCTCTCGGTTG-TAGC-AGAGCTGGTTGAAGACAACAAAT
1 CTTGCCTTC-CTC-ATTGACAGCGA-AGCAGATCGAAGAC-A-AAGC
41808469 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAGC
1 CTTGCCTTCCT-CATTGACAGCGAAGCAGATCGAAGACA-AAGC
*
41808513 ATTGCCT
1 CTTGCCT
41808520 CTCTCGGTTG
Statistics
Matches: 444, Mismatches: 123, Indels: 110
0.66 0.18 0.16
Matches are distributed among these distances:
42 6 0.01
43 145 0.33
44 170 0.38
45 117 0.26
46 6 0.01
ACGTcount: A:0.28, C:0.25, G:0.24, T:0.23
Consensus pattern (42 bp):
CTTGCCTTCCTCATTGACAGCGAAGCAGATCGAAGACAAAGC
Found at i:41808585 original size:439 final size:440
Alignment explanation
Indices: 41807752--41808696 Score: 1498
Period size: 439 Copynumber: 2.1 Consensus size: 440
41807742 AACAGATCAG
* * * *
41807752 TGAATACAGCAGATCTTGCCTTCCTGCATCGACAGGGAAGCAGATCGAAGACACAAGCGTTGCCT
1 TGAAGACAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAGCGTTACCT
* * *
41807817 CTCTTGGTTGTAGTGGAGCTGGTTGAAGACAACGGATCTTGCCTTCCTGCATTGACAACGAAGCA
66 CTCTCGGTTGTAGTGGAGCTGGTTGAAGACAACAGATCTTGCCTTCCTGCATCGACAACGAAGCA
* *
41807882 AATCGAAGACACAAGCCTTGCCTCTCTCAGTTTTAGTGAAGCTGGTTGAAGACAACAGATCTTGC
131 AATCGAAGACACAAGCCTTGCCTCTCTCAGTTGTAGTGAAGCTGGTTAAAGACAACAGATCTTGC
* **
41807947 CTTCCTGCATTGACAACGAAGCAGATCGAAGACAGAAGCCTTGCCTCTCTCGGTTGTAGTGGAGC
196 CTTCCTGCATTGACAACGAAGCAGATCGAAGACACAAGCCTTGCCTCTCTCGGTTGTAGCAGAGC
* *
41808012 TAGTTGAAGACAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAGCCTT
261 TAGTTGAAGACAACAAATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAGCATT
* *
41808077 GCCTCTCTCGGTTGTAGCGAAGCTGGTTGAAGACAACAGATCTTGCCTTCCTACATTGACAGCGA
326 GCCTCTCTCGGTTGTAGCGAAACTGGTTGAAGACAACAGATCTTGCCTGCCTACATTGACAGCGA
*
41808142 AGCAGATC-AAAGACACAAGCCTTGCCTCACTCGGTTGTAGTAAAGCTGGT
391 AGCAGATCGAAA-ACACAAGCCTTGCCTCACTCGGTTGTAGTAAAGCAGGT
*
41808192 TGAAGACAGCAGA-CTTGCCTTCCTGCATTGACAGCGAAACAGATCGAAGACACAAGCGTTACCT
1 TGAAGACAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAGCGTTACCT
* **
41808256 CTCTCGGTTGTAGTGGAGCTGGTTGAAGACAACAGATCTTGCTTTCCTGCATCGACAGGGAAGCA
66 CTCTCGGTTGTAGTGGAGCTGGTTGAAGACAACAGATCTTGCCTTCCTGCATCGACAACGAAGCA
* * *
41808321 GATCGAAGACACAAGCCTTGCCTCTCTCGGTTGTAGTGGAGCTGGTTAAAGACAACAGATCTTGC
131 AATCGAAGACACAAGCCTTGCCTCTCTCAGTTGTAGTGAAGCTGGTTAAAGACAACAGATCTTGC
*
41808386 CTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAGCCTTGCCTCTCTCGGTTGTAGCAGAGC
196 CTTCCTGCATTGACAACGAAGCAGATCGAAGACACAAGCCTTGCCTCTCTCGGTTGTAGCAGAGC
*
41808451 TGGTTGAAGACAACAAATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAGCATT
261 TAGTTGAAGACAACAAATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAGCATT
* * ** *
41808516 GCCTCTCTCGGTTGTAGCGAAACTGGTTGAAGACAACAGATCTTTCCTGCTTGTATTGACAGTGA
326 GCCTCTCTCGGTTGTAGCGAAACTGGTTGAAGACAACAGATCTTGCCTGCCTACATTGACAGCGA
* * **
41808581 AGCAGATCGAAAACACAGGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGT
391 AGCAGATCGAAAACACAAGCCTTGCCTCACTCGGTTGTAGTAAAGCAGGT
* * * * * *
41808631 TGAGGATAGCAGATGTTGCCTTCCTGCATTGATAGCGAAGCAGATCGAAGATACAAGCCTTACCT
1 TGAAGACAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAGCGTTACCT
41808696 C
66 C
41808697 CCAGGCGGTG
Statistics
Matches: 461, Mismatches: 42, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
439 399 0.87
440 62 0.13
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.24
Consensus pattern (440 bp):
TGAAGACAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAGCGTTACCT
CTCTCGGTTGTAGTGGAGCTGGTTGAAGACAACAGATCTTGCCTTCCTGCATCGACAACGAAGCA
AATCGAAGACACAAGCCTTGCCTCTCTCAGTTGTAGTGAAGCTGGTTAAAGACAACAGATCTTGC
CTTCCTGCATTGACAACGAAGCAGATCGAAGACACAAGCCTTGCCTCTCTCGGTTGTAGCAGAGC
TAGTTGAAGACAACAAATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAGCATT
GCCTCTCTCGGTTGTAGCGAAACTGGTTGAAGACAACAGATCTTGCCTGCCTACATTGACAGCGA
AGCAGATCGAAAACACAAGCCTTGCCTCACTCGGTTGTAGTAAAGCAGGT
Found at i:41808698 original size:88 final size:88
Alignment explanation
Indices: 41807752--41808696 Score: 1406
Period size: 88 Copynumber: 10.8 Consensus size: 88
41807742 AACAGATCAG
* * * * *
41807752 TGAATACAGCAGATCTTGCCTTCCTGCATCGACAGGGAAGCAGATCGAAGACACAAGCGTTGCCT
1 TGAAGACAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAGCCTTGCCT
*
41807817 CTCTTGGTTGTAGTGGAGCTGGT
66 CTCTCGGTTGTAGTGGAGCTGGT
* * *
41807840 TGAAGACAACGGATCTTGCCTTCCTGCATTGACAACGAAGCAAATCGAAGACACAAGCCTTGCCT
1 TGAAGACAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAGCCTTGCCT
* * *
41807905 CTCTCAGTTTTAGTGAAGCTGGT
66 CTCTCGGTTGTAGTGGAGCTGGT
* *
41807928 TGAAGACAACAGATCTTGCCTTCCTGCATTGACAACGAAGCAGATCGAAGACAGAAGCCTTGCCT
1 TGAAGACAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAGCCTTGCCT
*
41807993 CTCTCGGTTGTAGTGGAGCTAGT
66 CTCTCGGTTGTAGTGGAGCTGGT
41808016 TGAAGACAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAGCCTTGCCT
1 TGAAGACAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAGCCTTGCCT
* *
41808081 CTCTCGGTTGTAGCGAAGCTGGT
66 CTCTCGGTTGTAGTGGAGCTGGT
* *
41808104 TGAAGACAACAGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCAAAGACACAAGCCTTGCCT
1 TGAAGACAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAGCCTTGCCT
* **
41808169 CACTCGGTTGTAGTAAAGCTGGT
66 CTCTCGGTTGTAGTGGAGCTGGT
* * * *
41808192 TGAAGACAGCAGA-CTTGCCTTCCTGCATTGACAGCGAAACAGATCGAAGACACAAGCGTTACCT
1 TGAAGACAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAGCCTTGCCT
41808256 CTCTCGGTTGTAGTGGAGCTGGT
66 CTCTCGGTTGTAGTGGAGCTGGT
* * *
41808279 TGAAGACAACAGATCTTGCTTTCCTGCATCGACAGGGAAGCAGATCGAAGACACAAGCCTTGCCT
1 TGAAGACAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAGCCTTGCCT
41808344 CTCTCGGTTGTAGTGGAGCTGGT
66 CTCTCGGTTGTAGTGGAGCTGGT
*
41808367 TAAAGACAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAGCCTTGCCT
1 TGAAGACAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAGCCTTGCCT
**
41808432 CTCTCGGTTGTAGCAGAGCTGGT
66 CTCTCGGTTGTAGTGGAGCTGGT
* *
41808455 TGAAGACAACAAATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAGCATTGCCT
1 TGAAGACAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAGCCTTGCCT
* * *
41808520 CTCTCGGTTGTAGCGAAACTGGT
66 CTCTCGGTTGTAGTGGAGCTGGT
* * * * * * *
41808543 TGAAGACAACAGATCTTTCCTGCTTGTATTGACAGTGAAGCAGATCGAAAACACAGGCCTTGCCT
1 TGAAGACAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAGCCTTGCCT
* *
41808608 CCCTCGGTTGTAGTGGAGCAGGT
66 CTCTCGGTTGTAGTGGAGCTGGT
* * * * * * *
41808631 TGAGGATAGCAGATGTTGCCTTCCTGCATTGATAGCGAAGCAGATCGAAGATACAAGCCTTACCT
1 TGAAGACAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAGCCTTGCCT
41808696 C
66 C
41808697 CCAGGCGGTG
Statistics
Matches: 771, Mismatches: 85, Indels: 2
0.90 0.10 0.00
Matches are distributed among these distances:
87 78 0.10
88 693 0.90
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.24
Consensus pattern (88 bp):
TGAAGACAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAGCCTTGCCT
CTCTCGGTTGTAGTGGAGCTGGT
Found at i:41810143 original size:5 final size:5
Alignment explanation
Indices: 41810133--41810157 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
41810123 ATCCTCTTTG
41810133 TTATT TTATT TTATT TTATT TTATT
1 TTATT TTATT TTATT TTATT TTATT
41810158 AATTAGTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTATT
Found at i:41810359 original size:47 final size:48
Alignment explanation
Indices: 41810287--41810384 Score: 114
Period size: 47 Copynumber: 2.0 Consensus size: 48
41810277 TACTTTAATT
* *
41810287 TTTTTATATATTACAATCATATATTAGCGT-TAAATTTCATTATGTATTA
1 TTTTTATATATTACAATCATATATTAACATATAAATTT--TTATGTATTA
41810336 TTTTTA-A-ATTACAAT-ATATTATTAACATCATAAATTTTTATGTATTA
1 TTTTTATATATTACAATCATA-TATTAACAT-ATAAATTTTTATGTATTA
41810383 TT
1 TT
41810385 AGATTAGATT
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
46 3 0.07
47 27 0.61
48 1 0.02
49 13 0.30
ACGTcount: A:0.37, C:0.07, G:0.04, T:0.52
Consensus pattern (48 bp):
TTTTTATATATTACAATCATATATTAACATATAAATTTTTATGTATTA
Found at i:41823817 original size:90 final size:90
Alignment explanation
Indices: 41823618--41823821 Score: 252
Period size: 90 Copynumber: 2.3 Consensus size: 90
41823608 GTTTATCTGC
* *
41823618 AAACATTTGTGGTTTATCCACAAATTTACTGCAGCTTTTATCTGCAAAGCTATTGTGCATTCACA
1 AAACACTTGTGGTTTATCCACAAATTTACTGCAGATTTTATCTGCAAAGCTATTGTGCATTCACA
41823683 ACCTACTGGAAGCGTATTAACCTGT
66 ACCTACTGGAAGCGTATTAACCTGT
* * * * * * *
41823708 AAATACTGGTGGTTTATCCACAACTTTTACTAGCATATTTTATTTGCAAA-CTCGTTGTGTATTC
1 AAACACTTGTGGTTTATCCACAA-ATTTACT-GCAGATTTTATCTGCAAAGCT-ATTGTGCATTC
* *
41823772 ACAA-CTACTGGCAGCGTATTAACTTG-
63 ACAACCTACTGGAAGCGTATTAACCTGT
*
41823798 AAACACTTGTGGTTCATCCACAAA
1 AAACACTTGTGGTTTATCCACAAA
41823822 CTGGACTGTC
Statistics
Matches: 96, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
90 40 0.42
91 28 0.29
92 28 0.29
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (90 bp):
AAACACTTGTGGTTTATCCACAAATTTACTGCAGATTTTATCTGCAAAGCTATTGTGCATTCACA
ACCTACTGGAAGCGTATTAACCTGT
Found at i:41825892 original size:14 final size:14
Alignment explanation
Indices: 41825873--41825899 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
41825863 CATTTCTTGG
41825873 TCGGTTTAGTTCAC
1 TCGGTTTAGTTCAC
41825887 TCGGTTTAGTTCA
1 TCGGTTTAGTTCA
41825900 ACTGGACCAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.19, G:0.22, T:0.44
Consensus pattern (14 bp):
TCGGTTTAGTTCAC
Found at i:41832821 original size:44 final size:45
Alignment explanation
Indices: 41832758--41832873 Score: 162
Period size: 44 Copynumber: 2.6 Consensus size: 45
41832748 TATATTACAT
* *
41832758 AGTTTGTTCTAACACATCTCATTTAAAACTAGAAAGTTTGTTC-A
1 AGTTTGTTCCAACACATCTCATTTAAAACTACAAAGTTTGTTCAA
* *
41832802 AGTTTTTTCCAACACATCTCATTTAAAATTACAAAGTTTGTTCAA
1 AGTTTGTTCCAACACATCTCATTTAAAACTACAAAGTTTGTTCAA
* * *
41832847 AATTTGTTCCAATACTTCTCATTTAAA
1 AGTTTGTTCCAACACATCTCATTTAAA
41832874 TTTCAAAATT
Statistics
Matches: 63, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
44 39 0.62
45 24 0.38
ACGTcount: A:0.34, C:0.17, G:0.08, T:0.41
Consensus pattern (45 bp):
AGTTTGTTCCAACACATCTCATTTAAAACTACAAAGTTTGTTCAA
Found at i:41836416 original size:13 final size:14
Alignment explanation
Indices: 41836373--41836420 Score: 50
Period size: 13 Copynumber: 3.6 Consensus size: 14
41836363 GGAGTAGGAT
41836373 TCTGTATATCTGT-
1 TCTGTATATCTGTA
*
41836386 TATGTATATCTG-A
1 TCTGTATATCTGTA
41836399 TTCTG-ATATCTGTA
1 -TCTGTATATCTGTA
41836413 TCTG-ATAT
1 TCTGTATAT
41836421 GGACTTAGGT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
13 26 0.87
14 4 0.13
ACGTcount: A:0.23, C:0.12, G:0.15, T:0.50
Consensus pattern (14 bp):
TCTGTATATCTGTA
Found at i:41838056 original size:31 final size:30
Alignment explanation
Indices: 41838007--41838116 Score: 98
Period size: 31 Copynumber: 3.5 Consensus size: 30
41837997 TTTGATCTTT
*
41838007 TTAAACCTTTTTTAAACCCTAAATAAAGCCC
1 TTAATCCTTTTTT-AACCCTAAATAAAGCCC
* *
41838038 TCTAATCCTTTTTTAACCCTAAACAAAACACC
1 T-TAATCCTTTTTTAACCCTAAATAAAGC-CC
*
41838070 TTAATCC-TTTTTAGACCCT-AATCATAGCCC
1 TTAATCCTTTTTTA-ACCCTAAAT-AAAGCCC
41838100 TTTAATCACTCTTTTTA
1 -TTAATC-CT-TTTTTA
41838117 TTCAAACACT
Statistics
Matches: 65, Mismatches: 6, Indels: 13
0.77 0.07 0.15
Matches are distributed among these distances:
30 10 0.15
31 34 0.52
32 15 0.23
34 6 0.09
ACGTcount: A:0.33, C:0.27, G:0.03, T:0.37
Consensus pattern (30 bp):
TTAATCCTTTTTTAACCCTAAATAAAGCCC
Found at i:41838153 original size:32 final size:33
Alignment explanation
Indices: 41838112--41838173 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 33
41838102 TAATCACTCT
* *
41838112 TTTTATTCAAACACTAAA-CTCTAACAAAACCC
1 TTTTATTCAAACACCAAATCCCTAACAAAACCC
* *
41838144 TTTTCTTCAAACCCCAAATCCCTAACAAAA
1 TTTTATTCAAACACCAAATCCCTAACAAAA
41838174 TCTTTTTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
32 15 0.60
33 10 0.40
ACGTcount: A:0.42, C:0.31, G:0.00, T:0.27
Consensus pattern (33 bp):
TTTTATTCAAACACCAAATCCCTAACAAAACCC
Found at i:41838571 original size:11 final size:11
Alignment explanation
Indices: 41838551--41838584 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
41838541 TTTCTATTTC
*
41838551 TATTTTTTTTG
1 TATTTGTTTTG
41838562 TATTTGTTTTG
1 TATTTGTTTTG
41838573 TATTTGTATTTG
1 TATTTGT-TTTG
41838585 GGTTTTGTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 17 0.81
12 4 0.19
ACGTcount: A:0.12, C:0.00, G:0.15, T:0.74
Consensus pattern (11 bp):
TATTTGTTTTG
Found at i:41840381 original size:17 final size:16
Alignment explanation
Indices: 41840346--41840395 Score: 57
Period size: 16 Copynumber: 3.0 Consensus size: 16
41840336 TTAATTTTTT
*
41840346 TTAAATATTAAATAAAA
1 TTAAAAATT-AATAAAA
41840363 TTCAAAAAGTTAA-AAAA
1 TT-AAAAA-TTAATAAAA
41840380 TTAAAAATTAATAAAA
1 TTAAAAATTAATAAAA
41840396 AGCATTTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
15 4 0.14
16 9 0.31
17 8 0.28
18 6 0.21
19 2 0.07
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (16 bp):
TTAAAAATTAATAAAA
Found at i:41840396 original size:17 final size:16
Alignment explanation
Indices: 41840346--41840396 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 16
41840336 TTAATTTTTT
*
41840346 TTAAATATTAAATAAAA
1 TTAAAAATTAAA-AAAA
41840363 TTCAAAAAGTT-AAAAAA
1 TT-AAAAA-TTAAAAAAA
41840380 TTAAAAATTAATAAAAA
1 TTAAAAATTAA-AAAAA
41840397 GCATTTAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
15 2 0.07
16 6 0.21
17 13 0.45
18 6 0.21
19 2 0.07
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (16 bp):
TTAAAAATTAAAAAAA
Found at i:41840545 original size:18 final size:18
Alignment explanation
Indices: 41840524--41840558 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
41840514 TATATAAAAT
41840524 TTTTAAAAAATTATTAAA
1 TTTTAAAAAATTATTAAA
* *
41840542 TTTTATAAAATTTTTAA
1 TTTTAAAAAATTATTAA
41840559 TAAAATATAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTTAAAAAATTATTAAA
Found at i:41840882 original size:21 final size:22
Alignment explanation
Indices: 41840845--41840887 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
41840835 GAATTTTACT
*
41840845 TAATATTTATATAATTT-TTAA
1 TAATATTTATACAATTTATTAA
41840866 TAATATTT-TACAGATTTATTAA
1 TAATATTTATACA-ATTTATTAA
41840888 AAAATCATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 3 0.16
21 12 0.63
22 4 0.21
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (22 bp):
TAATATTTATACAATTTATTAA
Found at i:41842129 original size:3 final size:3
Alignment explanation
Indices: 41842121--41842145 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
41842111 CTCCATTGAT
41842121 GTA GTA GTA GTA GTA GTA GTA GTA G
1 GTA GTA GTA GTA GTA GTA GTA GTA G
41842146 AGGCAACGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (3 bp):
GTA
Found at i:41845143 original size:31 final size:29
Alignment explanation
Indices: 41845077--41845143 Score: 73
Period size: 31 Copynumber: 2.2 Consensus size: 29
41845067 ATGGATATGA
*
41845077 TTTTTAACAAAAGGATCAATTTGCTCTTT
1 TTTTTAACAAAAGGATCAATTTGCACTTT
**
41845106 AATTTAACATATAAGGA-CTAATTTGCACTTT
1 TTTTTAACA-A-AAGGATC-AATTTGCACTTT
41845137 TTTTTAA
1 TTTTTAA
41845144 TAAAGGGTGC
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
29 7 0.23
30 2 0.07
31 21 0.70
ACGTcount: A:0.34, C:0.12, G:0.09, T:0.45
Consensus pattern (29 bp):
TTTTTAACAAAAGGATCAATTTGCACTTT
Found at i:41847299 original size:13 final size:13
Alignment explanation
Indices: 41847281--41847332 Score: 56
Period size: 13 Copynumber: 4.1 Consensus size: 13
41847271 AGTCATTTTC
41847281 TCAATAAGAAAGA
1 TCAATAAGAAAGA
*
41847294 TCAATAAGAAA-T
1 TCAATAAGAAAGA
41847306 TCCAA-ATA-AAAGA
1 T-CAATA-AGAAAGA
41847319 TCAATAAGAAAGA
1 TCAATAAGAAAGA
41847332 T
1 T
41847333 ATTGTAATAC
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
12 9 0.28
13 23 0.72
ACGTcount: A:0.60, C:0.10, G:0.12, T:0.19
Consensus pattern (13 bp):
TCAATAAGAAAGA
Found at i:41847769 original size:18 final size:18
Alignment explanation
Indices: 41847725--41847769 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
41847715 CATTCGTTTC
*
41847725 CAAAACATTATTCATTTA
1 CAAAACGTTATTCATTTA
*
41847743 CAAATCGTTATTCAATTT-
1 CAAAACGTTATTC-ATTTA
41847761 CAAAACGTT
1 CAAAACGTT
41847770 TTCTTCTTGC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.40, C:0.18, G:0.04, T:0.38
Consensus pattern (18 bp):
CAAAACGTTATTCATTTA
Found at i:41850611 original size:11 final size:11
Alignment explanation
Indices: 41850597--41850640 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
41850587 AGATAAATAT
41850597 TATTTTATTAA
1 TATTTTATTAA
*
41850608 TATTTTAATGAGA
1 TATTTT-ATTA-A
*
41850621 TATTTTATTAT
1 TATTTTATTAA
41850632 TATTTTATT
1 TATTTTATT
41850641 TAGTATAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
11 15 0.54
12 6 0.21
13 7 0.25
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.64
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:41852451 original size:2 final size:2
Alignment explanation
Indices: 41852444--41852504 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
41852434 ATGGATATTA
41852444 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
41852486 TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG T
41852505 TCTATTGTTA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:41852727 original size:33 final size:32
Alignment explanation
Indices: 41852683--41852808 Score: 112
Period size: 33 Copynumber: 3.8 Consensus size: 32
41852673 CAGTGTTTAT
41852683 ATGTAAGACCATAGCTGGGCTATGGCATTCTG
1 ATGTAAGACCATAGCTGGGCTATGGCATTCTG
* * **
41852715 ATGATAAGACCATAACTGGGTTATGGCATTACAA
1 ATG-TAAGACCATAGCTGGGCTATGGCATT-CTG
* * *
41852749 ATGTAAGACCATGGCAGGG-TCATGGCAATGCATG
1 ATGTAAGACCATAGCTGGGCT-ATGGC-ATTC-TG
* *
41852783 -TGTAAGACCATAGTTGGACTATGGCA
1 ATGTAAGACCATAGCTGGGCTATGGCA
41852809 CAAAAAGAAC
Statistics
Matches: 74, Mismatches: 14, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
32 5 0.07
33 62 0.84
34 7 0.09
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (32 bp):
ATGTAAGACCATAGCTGGGCTATGGCATTCTG
Found at i:41853974 original size:25 final size:25
Alignment explanation
Indices: 41853945--41854000 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
41853935 TTCAAATTCC
*
41853945 AAAAAGTCATTAAGAAAT-ATCAATA
1 AAAAAGTC-TAAAGAAATGATCAATA
* * *
41853970 AAAAATTCTAAATAAATGATCGATA
1 AAAAAGTCTAAAGAAATGATCAATA
41853995 AAAAAG
1 AAAAAG
41854001 ATATCGACTC
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
24 7 0.28
25 18 0.72
ACGTcount: A:0.61, C:0.07, G:0.09, T:0.23
Consensus pattern (25 bp):
AAAAAGTCTAAAGAAATGATCAATA
Found at i:41854362 original size:207 final size:206
Alignment explanation
Indices: 41853800--41854363 Score: 912
Period size: 206 Copynumber: 2.8 Consensus size: 206
41853790 GGGGTGTTAC
* * *
41853800 AGATATTGACTACACATGTTGAGAAATTATGTTAGAATATGACTAATCAAAGGAAATTGGTGAAT
1 AGATATCGACTCCACATGTTGAGAAATTATGTGAGAATATGACTAATCAAAGGAAATTGGTGAAT
*
41853865 GAAATTGTTTTTTTTCTCATTCTCAATACATTATTTTAGATGCAATGTATGTAATGTGTGCTTTG
66 GAAATTGTTTTTTTTCTCATTCTCAATACATTATTTTAGATGCAATGGATGTAATGTGTGCTTTG
* * *
41853930 AAAAATTCAAATTCCAAAAAG-------TCATTAAGAAATATCAATAAAAAATTCTAAATAAATG
131 AAAAATTCAAATTCCAAAAAGTCATTTTTCATTAAGAAAGATCAATAAAAAATTCCAAATAAAAG
*
41853988 ATCGATAAAAA
196 ATCAATAAAAA
* *
41853999 AGATATCGACTCCACATGTTGAGAAATTACGTGAGAATATAACTAATCAAAGGAAATTGGTGAAT
1 AGATATCGACTCCACATGTTGAGAAATTATGTGAGAATATGACTAATCAAAGGAAATTGGTGAAT
41854064 GAAATTG-TTTTTTTCTCATTCTCAATACATTATTTTAGATGCAATGGATGTAATGTGTGCTTTG
66 GAAATTGTTTTTTTTCTCATTCTCAATACATTATTTTAGATGCAATGGATGTAATGTGTGCTTTG
* *
41854128 AAAAATTCAAATTCCAAAAAGTCATTTTCTCATTAAGAAAGATTAATAAGAAATTCCAAATAAAA
131 AAAAATTCAAATTCCAAAAAGTCATTTT-TCATTAAGAAAGATCAATAAAAAATTCCAAATAAAA
*
41854193 GATCAATAAGAA
195 GATCAATAAAAA
* *
41854205 AGATATCGACTCCACATATTGAGAAATTATGTGAGAATATGACTAATCGAAA-GAAATTAGTGAA
1 AGATATCGACTCCACATGTTGAGAAATTATGTGAGAATATGACTAATC-AAAGGAAATTGGTGAA
41854269 TGAAATTGTTTTTTTTCTCATTCTCAATACATTATTTTAGATGCAATGGATGTAATGTGTGCTTT
65 TGAAATTGTTTTTTTTCTCATTCTCAATACATTATTTTAGATGCAATGGATGTAATGTGTGCTTT
41854334 GAAAAATTCAAATTCCAAAAAGTCATTTTT
130 GAAAAATTCAAATTCCAAAAAGTCATTTTT
41854364 GTACCATTCT
Statistics
Matches: 338, Mismatches: 17, Indels: 13
0.92 0.05 0.04
Matches are distributed among these distances:
198 77 0.23
199 67 0.20
206 106 0.31
207 88 0.26
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.35
Consensus pattern (206 bp):
AGATATCGACTCCACATGTTGAGAAATTATGTGAGAATATGACTAATCAAAGGAAATTGGTGAAT
GAAATTGTTTTTTTTCTCATTCTCAATACATTATTTTAGATGCAATGGATGTAATGTGTGCTTTG
AAAAATTCAAATTCCAAAAAGTCATTTTTCATTAAGAAAGATCAATAAAAAATTCCAAATAAAAG
ATCAATAAAAA
Found at i:41869775 original size:40 final size:40
Alignment explanation
Indices: 41869716--41869856 Score: 228
Period size: 40 Copynumber: 3.5 Consensus size: 40
41869706 AGGCTTGTGC
* *
41869716 CTAGCAGGCTTAATGCCGGTGAAATATTCAAACTACACGT
1 CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
*
41869756 CTAGCAGGCTTAATACCGGTGAAATATTCAGACTATACGT
1 CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
* *
41869796 CTAGCAGGCTTAATGCCAGTGAAATATTCAGACTATACAT
1 CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
*
41869836 CTAGCAGGCTTCATGCCGGTG
1 CTAGCAGGCTTAATGCCGGTG
41869857 TACGGAATCA
Statistics
Matches: 93, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 93 1.00
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.26
Consensus pattern (40 bp):
CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
Found at i:41870137 original size:2 final size:2
Alignment explanation
Indices: 41870130--41870160 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
41870120 AACGAAGGCT
*
41870130 TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
41870161 GGATGAAGTA
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:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:41871286 original size:14 final size:14
Alignment explanation
Indices: 41871267--41871297 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
41871257 AGTAAATATC
*
41871267 ATATATATATTTAT
1 ATATATATATTCAT
41871281 ATATATATATTCAT
1 ATATATATATTCAT
41871295 ATA
1 ATA
41871298 GAACGTCTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (14 bp):
ATATATATATTCAT
Found at i:41871908 original size:30 final size:32
Alignment explanation
Indices: 41871845--41871909 Score: 107
Period size: 32 Copynumber: 2.1 Consensus size: 32
41871835 ATAAAAATGG
41871845 TGAAAATGGAGAAATGAGAAATCATTTGAAAA
1 TGAAAATGGAGAAATGAGAAATCATTTGAAAA
*
41871877 TGAAAATGGAGAAATG-GAAA-CATTTGGAAA
1 TGAAAATGGAGAAATGAGAAATCATTTGAAAA
41871907 TGA
1 TGA
41871910 TTATGATTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 12 0.38
31 4 0.12
32 16 0.50
ACGTcount: A:0.51, C:0.03, G:0.25, T:0.22
Consensus pattern (32 bp):
TGAAAATGGAGAAATGAGAAATCATTTGAAAA
Found at i:41871940 original size:57 final size:57
Alignment explanation
Indices: 41871871--41871996 Score: 193
Period size: 57 Copynumber: 2.2 Consensus size: 57
41871861 AGAAATCATT
* *
41871871 TGAAAATGAAAATGGAGAAATGGAAA-CATTTGGAAA-TGATTATGATTTTCTCCAAAA
1 TGAAAATGAAAATAGAGAAAT-GAAATCATTTAGAAATTGA-TATGATTTTCTCCAAAA
41871928 TGAAAATGAAAATAGAGAAATGAAATCATTTAGAAATTGATATGATTTTCTCCAAAA
1 TGAAAATGAAAATAGAGAAATGAAATCATTTAGAAATTGATATGATTTTCTCCAAAA
*
41871985 TGAAAATAAAAA
1 TGAAAATGAAAA
41871997 ATTAAAATGA
Statistics
Matches: 64, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
56 4 0.06
57 57 0.89
58 3 0.05
ACGTcount: A:0.50, C:0.06, G:0.16, T:0.28
Consensus pattern (57 bp):
TGAAAATGAAAATAGAGAAATGAAATCATTTAGAAATTGATATGATTTTCTCCAAAA
Found at i:41877001 original size:11 final size:11
Alignment explanation
Indices: 41876983--41877012 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
41876973 ACTAGATTAC
41876983 AAATATTTTAA
1 AAATATTTTAA
*
41876994 ATATATTTTAA
1 AAATATTTTAA
41877005 AAATATTT
1 AAATATTT
41877013 GTCCAGAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
AAATATTTTAA
Found at i:41879411 original size:18 final size:18
Alignment explanation
Indices: 41879388--41879433 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
41879378 TAAATAGTTT
41879388 GAGTTATTCGAATTAATC
1 GAGTTATTCGAATTAATC
*
41879406 GAGTTATTCAAATTAATC
1 GAGTTATTCGAATTAATC
*
41879424 AAGTTATTCG
1 GAGTTATTCG
41879434 GATCAACATG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.39
Consensus pattern (18 bp):
GAGTTATTCGAATTAATC
Found at i:41885095 original size:62 final size:63
Alignment explanation
Indices: 41885029--41885192 Score: 219
Period size: 62 Copynumber: 2.7 Consensus size: 63
41885019 ACGCAGTAAA
*
41885029 TTACACGGCCTGGGCACACAC-CAGTGTCCCTGGCTGTGTGGTCTTGTACCAAAAATAATGAG
1 TTACACGGCCTAGGCACACACGCAGTGTCCCTGGCTGTGTGGTCTTGTACCAAAAATAATGAG
* * *
41885091 TTACACGGCCTAGGCA-A-ACGCATGTGTCCCTGGCCGTGTGGTCTTGTACCACAAATAGTGAG
1 TTACACGGCCTAGGCACACACGCA-GTGTCCCTGGCTGTGTGGTCTTGTACCAAAAATAATGAG
* * * *
41885153 TTACACAGCCTAGGCACACGCTC-GTGGCCCTGGCTGTGTG
1 TTACACGGCCTAGGCACACACGCAGTGTCCCTGGCTGTGTG
41885193 AACTCTTCAC
Statistics
Matches: 89, Mismatches: 9, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
60 2 0.02
61 3 0.03
62 81 0.91
63 1 0.01
64 2 0.02
ACGTcount: A:0.21, C:0.27, G:0.27, T:0.24
Consensus pattern (63 bp):
TTACACGGCCTAGGCACACACGCAGTGTCCCTGGCTGTGTGGTCTTGTACCAAAAATAATGAG
Found at i:41892051 original size:62 final size:62
Alignment explanation
Indices: 41891983--41892125 Score: 200
Period size: 62 Copynumber: 2.3 Consensus size: 62
41891973 TTACATGGCT
41891983 TGGGCACACGCTCGTGTCCCT-GTC-CATGTTGTCTTGTACCACAAACAGTGAGTTACACAGCC
1 TGGGCACACGCTCGTGTCCCTAGTCGCATG--GTCTTGTACCACAAACAGTGAGTTACACAGCC
* * * *
41892045 TGGGCACACGCTTGTGTCCCTAGTCGTATGGTCTTGTACCACAAATAGTGAGTTACACGGCC
1 TGGGCACACGCTCGTGTCCCTAGTCGCATGGTCTTGTACCACAAACAGTGAGTTACACAGCC
* *
41892107 TAGGCACACGCACGTGTCC
1 TGGGCACACGCTCGTGTCC
41892126 TTGGACGTGT
Statistics
Matches: 72, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
62 66 0.92
63 3 0.04
64 3 0.04
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.25
Consensus pattern (62 bp):
TGGGCACACGCTCGTGTCCCTAGTCGCATGGTCTTGTACCACAAACAGTGAGTTACACAGCC
Found at i:41895242 original size:18 final size:20
Alignment explanation
Indices: 41895213--41895258 Score: 64
Period size: 18 Copynumber: 2.5 Consensus size: 20
41895203 TATGATTTAT
41895213 AGGTTGAATTGAA-TACTTG
1 AGGTTGAATTGAAGTACTTG
41895232 AGGTT-AATTGAAGTACTT-
1 AGGTTGAATTGAAGTACTTG
41895250 A-GTTGAATT
1 AGGTTGAATT
41895259 AAATTATCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 3 0.12
18 12 0.48
19 10 0.40
ACGTcount: A:0.33, C:0.04, G:0.24, T:0.39
Consensus pattern (20 bp):
AGGTTGAATTGAAGTACTTG
Found at i:41896854 original size:54 final size:54
Alignment explanation
Indices: 41896772--41896888 Score: 146
Period size: 54 Copynumber: 2.2 Consensus size: 54
41896762 CAATTCAGTG
* * *
41896772 AGTTACACAGTCTAGCACACGGCCTGCGACACGACTGTGTGTCAC-AAATTAGAA
1 AGTTACACGGTCTAGCACACGGCCTGCGACACGACCGTGTGAC-CTAAATTAGAA
* * * **
41896826 AGTTACACGGTCTGGCACATGGCCTGCGATACGACCGTGTGACCTAAATTAGGG
1 AGTTACACGGTCTAGCACACGGCCTGCGACACGACCGTGTGACCTAAATTAGAA
41896880 AGTTACACG
1 AGTTACACG
41896889 ATTTAAGACA
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
53 1 0.02
54 53 0.98
ACGTcount: A:0.28, C:0.25, G:0.26, T:0.21
Consensus pattern (54 bp):
AGTTACACGGTCTAGCACACGGCCTGCGACACGACCGTGTGACCTAAATTAGAA
Found at i:41897968 original size:2 final size:2
Alignment explanation
Indices: 41897961--41897996 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
41897951 CGAGTTTAGG
41897961 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
41897997 ATGTCCATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:41898975 original size:3 final size:3
Alignment explanation
Indices: 41898967--41898998 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
41898957 TTTTCTCTTA
41898967 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
41898999 CCTTATTCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:41903332 original size:21 final size:22
Alignment explanation
Indices: 41903283--41903332 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 22
41903273 TAAAAATATT
* *
41903283 TATAACATTATTTTTATGAATA
1 TATAATATTATATTTATGAATA
41903305 -AGT-ATATTATATTTAT-AATA
1 TA-TAATATTATATTTATGAATA
41903325 TATAATAT
1 TATAATAT
41903333 ATACACATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 7
0.72 0.06 0.22
Matches are distributed among these distances:
20 5 0.22
21 17 0.74
22 1 0.04
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (22 bp):
TATAATATTATATTTATGAATA
Found at i:41904732 original size:33 final size:32
Alignment explanation
Indices: 41904594--41904754 Score: 124
Period size: 33 Copynumber: 4.8 Consensus size: 32
41904584 ACATTCGTAG
*
41904594 TGCCATAACCCAGGTATGGTCTTATCATCAGAA
1 TGCCATAACCCAGCTATGGTCTTA-CATCAGAA
* * * *
41904627 TACCATAGCCCAGCTATGGTCTTACATATAAACA
1 TGCCATAACCCAGCTATGGTCTTACAT-CAGA-A
*** * * * * *
41904661 CTGCCATGGTCCAACCATGGTCTTACGTTCATAG
1 -TGCCATAACCCAGCTATGGTCTTAC-ATCAGAA
* *
41904695 TGCCATAACCAAGTTATGGTCTTATCATCAGAA
1 TGCCATAACCCAGCTATGGTCTTA-CATCAGAA
*
41904728 TGCCATAGCCCAGCTATGGTCTTACAT
1 TGCCATAACCCAGCTATGGTCTTACAT
41904755 ATAAACACTG
Statistics
Matches: 96, Mismatches: 27, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
32 6 0.06
33 65 0.68
34 2 0.02
35 22 0.23
36 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.29
Consensus pattern (32 bp):
TGCCATAACCCAGCTATGGTCTTACATCAGAA
Found at i:41907504 original size:8 final size:8
Alignment explanation
Indices: 41907491--41907533 Score: 52
Period size: 8 Copynumber: 5.2 Consensus size: 8
41907481 TAAAAATTAT
41907491 AATTAAAA
1 AATTAAAA
41907499 AATTAAAA
1 AATTAAAA
*
41907507 AGTTCAAAA
1 AATT-AAAA
41907516 AA-TAATAA
1 AATTAA-AA
41907524 AATTAAAA
1 AATTAAAA
41907532 AA
1 AA
41907534 ATTACAATTC
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
7 2 0.07
8 20 0.67
9 8 0.27
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.23
Consensus pattern (8 bp):
AATTAAAA
Found at i:41907517 original size:17 final size:18
Alignment explanation
Indices: 41907491--41907537 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 18
41907481 TAAAAATTAT
41907491 AATT-AAAAAATTAA-AA
1 AATTAAAAAAATTAATAA
* *
41907507 AGTTCAAAAAA-TAATAA
1 AATTAAAAAAATTAATAA
41907524 AATTAAAAAAATTA
1 AATTAAAAAAATTA
41907538 CAATTCCAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
16 6 0.24
17 17 0.68
18 2 0.08
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (18 bp):
AATTAAAAAAATTAATAA
Found at i:41907542 original size:15 final size:15
Alignment explanation
Indices: 41907482--41907552 Score: 54
Period size: 15 Copynumber: 4.5 Consensus size: 15
41907472 TAAATAATCT
*
41907482 AAAAATTATAATT-A
1 AAAAATTAAAATTAA
41907496 AAAAATTAAAAAGTTCAA
1 AAAAATT-AAAA-TT-AA
*
41907514 AAAATAATAAAATTAA
1 AAAA-ATTAAAATTAA
* **
41907530 AAAAATTACAATTCC
1 AAAAATTAAAATTAA
41907545 AAAAATTA
1 AAAAATTA
41907553 TAAAAATGTA
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
14 7 0.15
15 18 0.39
16 8 0.17
17 2 0.04
18 9 0.20
19 2 0.04
ACGTcount: A:0.66, C:0.06, G:0.01, T:0.27
Consensus pattern (15 bp):
AAAAATTAAAATTAA
Found at i:41907591 original size:21 final size:20
Alignment explanation
Indices: 41907545--41907609 Score: 67
Period size: 21 Copynumber: 3.1 Consensus size: 20
41907535 TTACAATTCC
* *
41907545 AAAAATTATAAAAATGTAAA
1 AAAAATTATAAAATTTTAAA
*
41907565 ACAAAATTATAAAATTTTCCAA
1 A-AAAATTATAAAATTTT-AAA
*
41907587 AAAAATTCTAAAATTTTAGAA
1 AAAAATTATAAAATTTTA-AA
41907608 AA
1 AA
41907610 TAGGAATACA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
20 1 0.03
21 33 0.89
22 3 0.08
ACGTcount: A:0.62, C:0.06, G:0.03, T:0.29
Consensus pattern (20 bp):
AAAAATTATAAAATTTTAAA
Found at i:41907685 original size:3 final size:3
Alignment explanation
Indices: 41907677--41907706 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
41907667 AAAATGTTTT
41907677 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
41907707 CCTAAATTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:41909332 original size:27 final size:29
Alignment explanation
Indices: 41909302--41909359 Score: 77
Period size: 26 Copynumber: 2.1 Consensus size: 29
41909292 TAGATTGTTA
*
41909302 AAATTCTTTTAAAAGA-A-AACTC-AAGAG
1 AAATTC-TTTAAAAAACATAACTCAAAGAG
41909329 AAATTCTTTAAAAAACATAACTCAAAGAG
1 AAATTCTTTAAAAAACATAACTCAAAGAG
41909358 AA
1 AA
41909360 TTTTATTAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
26 8 0.30
27 7 0.26
28 5 0.19
29 7 0.26
ACGTcount: A:0.55, C:0.12, G:0.09, T:0.24
Consensus pattern (29 bp):
AAATTCTTTAAAAAACATAACTCAAAGAG
Done.