Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007957.1 Hibiscus syriacus cultivar Beakdansim tig00110384_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 8646418
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 20 of 43
Found at i:3996229 original size:7 final size:7
Alignment explanation
Indices: 3996217--3996243 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
3996207 ATCACCATAA
3996217 TGCAACT
1 TGCAACT
3996224 TGCAACT
1 TGCAACT
3996231 TGCAACT
1 TGCAACT
3996238 TGCAAC
1 TGCAAC
3996244 CTTAGGGAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.26
Consensus pattern (7 bp):
TGCAACT
Found at i:3997517 original size:18 final size:18
Alignment explanation
Indices: 3997486--3997521 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
3997476 AACATGTCGG
3997486 TGCGTAAAGTCATAAACA
1 TGCGTAAAGTCATAAACA
3997504 TGCG-AAAGTACATAAACA
1 TGCGTAAAGT-CATAAACA
3997522 AACATGAGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.47, C:0.17, G:0.17, T:0.19
Consensus pattern (18 bp):
TGCGTAAAGTCATAAACA
Found at i:4007166 original size:21 final size:21
Alignment explanation
Indices: 4007142--4007204 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
4007132 AAAGGATCAC
4007142 GCGTTGAATTCAATGGACCAT
1 GCGTTGAATTCAATGGACCAT
* * *
4007163 GCGTTGAATTAAATTGAGCAT
1 GCGTTGAATTCAATGGACCAT
* *
4007184 GCATTGAATTCAATGAACCAT
1 GCGTTGAATTCAATGGACCAT
4007205 CACGCATTGA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (21 bp):
GCGTTGAATTCAATGGACCAT
Found at i:4010694 original size:23 final size:22
Alignment explanation
Indices: 4010668--4010731 Score: 83
Period size: 23 Copynumber: 2.8 Consensus size: 22
4010658 CAGCTCATAT
4010668 AATTGCACCTAAGTGCCACGTAG
1 AATTGCACCT-AGTGCCACGTAG
* *
4010691 AATTGCACCGGAGTGCCGCGTAG
1 AATTGCACC-TAGTGCCACGTAG
4010714 AATTGCACCGTAGTGCCA
1 AATTGCACC-TAGTGCCA
4010732 TATAAAAATG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.20
Consensus pattern (22 bp):
AATTGCACCTAGTGCCACGTAG
Found at i:4017530 original size:23 final size:23
Alignment explanation
Indices: 4017504--4017590 Score: 131
Period size: 23 Copynumber: 3.8 Consensus size: 23
4017494 CAGCTCATAT
4017504 AATTGCACCTAAGTGCCACGTAG
1 AATTGCACCTAAGTGCCACGTAG
4017527 AATTGCACCTAAGTGCCACGTAG
1 AATTGCACCTAAGTGCCACGTAG
** *
4017550 AATTGCACCGGAGTGCCGCGTAG
1 AATTGCACCTAAGTGCCACGTAG
4017573 AATTGCACCGT-AGTGCCA
1 AATTGCACC-TAAGTGCCA
4017591 TATAAAAATG
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
23 58 1.00
ACGTcount: A:0.28, C:0.26, G:0.25, T:0.21
Consensus pattern (23 bp):
AATTGCACCTAAGTGCCACGTAG
Found at i:4019817 original size:25 final size:25
Alignment explanation
Indices: 4019780--4019840 Score: 88
Period size: 25 Copynumber: 2.5 Consensus size: 25
4019770 GAATAATAAC
4019780 GATA-TTTTTATTAGAAATTTTAAT
1 GATATTTTTTATTAGAAATTTTAAT
*
4019804 GATATTTTTTATTAGAATTTTTAAT
1 GATATTTTTTATTAGAAATTTTAAT
* *
4019829 AATATCTTTTAT
1 GATATTTTTTAT
4019841 GCATCATAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
24 4 0.12
25 29 0.88
ACGTcount: A:0.34, C:0.02, G:0.07, T:0.57
Consensus pattern (25 bp):
GATATTTTTTATTAGAAATTTTAAT
Found at i:4025010 original size:16 final size:16
Alignment explanation
Indices: 4024989--4025021 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
4024979 TAAAAATATT
*
4024989 TTTTATTTTAATAAAA
1 TTTTATTTTAAAAAAA
4025005 TTTTATTTTAAAAAAA
1 TTTTATTTTAAAAAAA
4025021 T
1 T
4025022 ATTAAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TTTTATTTTAAAAAAA
Found at i:4029542 original size:180 final size:179
Alignment explanation
Indices: 4029257--4029638 Score: 405
Period size: 181 Copynumber: 2.1 Consensus size: 179
4029247 ATATATGCTA
* * * * *
4029257 TCACTATAGTTAAAATTTATAACTACAAATATAATTTGTCACCAAAACATGAATGTAATTATTTT
1 TCACTATAATTAAAATATATAACGACAAATATAATTTGTCACCAAAAAATGAATGTAATTATTTG
* * * **
4029322 TTATGACAATGTTTTTTGTAATAATTATTAACAATTATAGTTATAAAATTTGTCACTATATAACT
66 TTATGACAATGTTTTTTGTAACAATAATTAACAATTATAGTTACAAAACATGTCACTATATAA-T
*
4029387 TTT-TTGACGTA-AAAAATATGGAGAGAAAT-ATCTGTGACAATATATTTTG
130 TTTGTTGACGTACAAAAAT-TGGAGA-AAATCATCTGTGACAATACATTTTG
* * * * * * *
4029436 TCACTATAATTAAAACATATAACGACAAATATTATTTTTTTACTAAAAAATTGAATTTTATTATT
1 TCACTATAATTAAAATATATAACGACAAATA-TAATTTGTCACCAAAAAA-TGAATGTAATTATT
* ** * *
4029501 TGTTGTGACAAT-TTTTTTGTAACAATAATTATA-GTTTATAGTTACAAAACATGTCATTATATG
64 TGTTATGACAATGTTTTTTGTAACAATAATTA-ACAATTATAGTTACAAAACATGTCACTATATA
*** * * *
4029564 ATTTTGTTTTTGTACCAAAAATTGGAGATAATCATTTGTGACTATACATTTTG
128 ATTTTGTTGACGTA-CAAAAATTGGAGAAAATCATCTGTGACAATACATTTTG
4029617 TCACTATAATTAAAATATATAA
1 TCACTATAATTAAAATATATAA
4029639 TTACAAACAA
Statistics
Matches: 166, Mismatches: 30, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
179 31 0.19
180 62 0.37
181 67 0.40
182 6 0.04
ACGTcount: A:0.40, C:0.09, G:0.09, T:0.42
Consensus pattern (179 bp):
TCACTATAATTAAAATATATAACGACAAATATAATTTGTCACCAAAAAATGAATGTAATTATTTG
TTATGACAATGTTTTTTGTAACAATAATTAACAATTATAGTTACAAAACATGTCACTATATAATT
TTGTTGACGTACAAAAATTGGAGAAAATCATCTGTGACAATACATTTTG
Found at i:4033272 original size:200 final size:197
Alignment explanation
Indices: 4032897--4033955 Score: 1063
Period size: 200 Copynumber: 5.3 Consensus size: 197
4032887 GTTCTCAGAT
* * * *
4032897 TGAGTGGAATTGAACTC-AAGAGCTTCGGTC-AACTA-ATAGCTCTTCACGA-CTTAAGTTATGT
1 TGAGTGGAATCGAACTCGAA-AGCTTTGGTCGAA--AGATAGCTCTTCTC-ACCTTAAGCTATGT
* ** * * * * *
4032958 CGAAATTTGACTGGAAGTAATTCCTCGTTGCTAAATCACAGTCAACCTACGTCTTCTTCCTGGTT
62 CCAAATTTGACTGGAAGTGGTTCCTTGTTGCCAAATCACAGTCAACCTAAGTCTTCTTCTTGGCT
* * * ** * * *
4033023 TAAAGAGCTCGATTTGAAATTTGATCAGAATGTAGTTCCTCATTGCTACCATGTGGTTAATGCCC
127 TAAAGACCTCG-TTTGAATTTTGA-CAGAAAGTAGTTCCTCGCTGCTACCATGCGGTTGATGCAC
*
4033088 TATCGAGC
190 TCTCGAGC
*
4033096 TGAGTGGAATCGAACTCGAAAGCTTTGGTCGATAGATAGCTCTTCTCACCTTAAGCTATGTCCAA
1 TGAGTGGAATCGAACTCGAAAGCTTTGGTCGAAAGATAGCTCTTCTCACCTTAAGCTATGTCCAA
* * *
4033161 ATTTGATTGGTAAATGGTTCCTTGTTGCCAAATCGA-AGTCAACCTAAGTCTTCTTCTTGTCTTA
66 ATTTGACTGG-AAGTGGTTCCTTGTTGCCAAATC-ACAGTCAACCTAAGTCTTCTTCTTGGCTTA
* ** * * * *
4033225 AAGACCTCAGTTTGAATTTTAACCAGAAAGTAGTTTTTCGATGCTACCATGCGATCGATGCACTA
129 AAGACCTC-GTTTGAATTTTGA-CAGAAAGTAGTTCCTCGCTGCTACCATGCGGTTGATGCACTC
* *
4033290 TCAAGT
192 TCGAGC
* * * * * * *
4033296 TGAGTAGAATCGAACTCGAAAGCTTTGGTTGACAGATAGCTCTTTTCGCCTTAAGTTATGTCCGA
1 TGAGTGGAATCGAACTCGAAAGCTTTGGTCGAAAGATAGCTCTTCTCACCTTAAGCTATGTCCAA
* * * ** * *
4033361 ATTTAACTGGGAAGTGGTTCATTATTGCCAAATCATTGTCAACCTAAGACTTCCTCTTGGCTTAA
66 ATTTGACT-GGAAGTGGTTCCTTGTTGCCAAATCACAGTCAACCTAAGTCTTCTTCTTGGCTTAA
* * * **
4033426 AGACCTCGTTTGAATTTTGACTGAAAGATAGTTCCTCGCTACTACCATGCGGTCGATGTGCTCTC
130 AGACCTCGTTTGAATTTTGACAGAAAG-TAGTTCCTCGCTGCTACCATGCGGTTGATGCACTCTC
*
4033491 GAAC
194 GAGC
* *
4033495 TGAGTGGAATCGAACTCGAAAGCTTTGGTCGACAA-ATAGCTATTCTCGCCTTAAGCTATGT-CA
1 TGAGTGGAATCGAACTCGAAAGCTTTGGTCGA-AAGATAGCTCTTCTCACCTTAAGCTATGTCCA
* * *
4033558 GAATTTAACTAGGAAGTGGTTCCATGTTGCCAAATCACAGTCAACTTAAGTCTTCTTCTTGGCTT
65 -AATTTGACT-GGAAGTGGTTCCTTGTTGCCAAATCACAGTCAACCTAAGTCTTCTTCTTGGCTT
* * * * *
4033623 AAAGACCTCAGTTTGAATTTTGATCAGAAGGTGGTTTCTCGCTGCTACCATGAGGTTGATACACT
128 AAAGACCTC-GTTTGAATTTTGA-CAGAAAGTAGTTCCTCGCTGCTACCATGCGGTTGATGCACT
4033688 CTCGAGC
191 CTCGAGC
*** * * * ** * ** *
4033695 TGAGCAAAATCGAACTCGAAAGCTTTGGTTGAAAAATATCTCTTCTTGCTTTAATTTATGTCAAA
1 TGAGTGGAATCGAACTCGAAAGCTTTGGTCGAAAGATAGCTCTTCTCACCTTAAGCTATGTCCAA
* * ** *
4033760 ATTTGACTGGGAAGTGGTTCTTTGTTGCCAAATCGCAGTCAACCTTGGTCTTCTTCTTAGCTTAA
66 ATTTGACT-GGAAGTGGTTCCTTGTTGCCAAATCACAGTCAACCTAAGTCTTCTTCTTGGCTTAA
* * * * * *
4033825 AGACCTCGGTTTGAATTTTGATAGGAAGGTAGTTCCTCCCTACTACTATGCGGTTGATGCGCTCT
130 AGACCTC-GTTTGAATTTTGACA-GAAAGTAGTTCCTCGCTGCTACCATGCGGTTGATGCACTCT
4033890 CGAGC
193 CGAGC
* * *
4033895 TGAGTGGAATCAAACTCGAAAGCTTTGGTTGAAAGATAACTCTTCTCGA-CTTAAGCTATGT
1 TGAGTGGAATCGAACTCGAAAGCTTTGGTCGAAAGATAGCTCTTCTC-ACCTTAAGCTATGT
4033956 TGTGGATGAT
Statistics
Matches: 713, Mismatches: 129, Indels: 35
0.81 0.15 0.04
Matches are distributed among these distances:
198 9 0.01
199 222 0.31
200 472 0.66
201 10 0.01
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (197 bp):
TGAGTGGAATCGAACTCGAAAGCTTTGGTCGAAAGATAGCTCTTCTCACCTTAAGCTATGTCCAA
ATTTGACTGGAAGTGGTTCCTTGTTGCCAAATCACAGTCAACCTAAGTCTTCTTCTTGGCTTAAA
GACCTCGTTTGAATTTTGACAGAAAGTAGTTCCTCGCTGCTACCATGCGGTTGATGCACTCTCGA
GC
Found at i:4033671 original size:399 final size:399
Alignment explanation
Indices: 4032931--4033955 Score: 1175
Period size: 399 Copynumber: 2.6 Consensus size: 399
4032921 TCGGTCAACT
** * * * ** * ** *
4032931 AATAGCTCTTCACGACTTAAGTTATGTCGAAATTTGACT-GGAAGTAATTCCTCGTTGCTAAATC
1 AATAGCTCTTCTTGCCTTAAGTTATGTCAAAATTTAACTGGGAAGTGGTTCATTATTGCCAAATC
* * * * * * * * * *
4032995 ACAGTCAACCTACGTCTTCTTCCTGGTTTAAAGAGCTCGATTTGAAATTTGATCAGAATG-TAGT
66 ACAGTCAACCTAAGACTTCCTCTTAGCTTAAAGACCTCGGTTTGAATTTTGAT-AGAAAGATAGT
** * * ** * *
4033059 TCCTCATTGCTACCATGTGGTTAATGCCCTATCGAGCTGAGTGGAATCGAACTCGAAAGCTTTGG
130 TCCTCCCTACTACCATGCGGTCGATGCGCTCTCGAGCTGAGTGGAATCGAACTCGAAAGCTTTGG
* * * * *
4033124 TCGATAGATAGCTCTTCTCACCTTAAGCTATGTCCAAATTTGATTGGTAAATGGTTCCTTGTTGC
195 TCGA-AAATAGCTCTTCTCGCCTTAAGCTATGTCCAAATTTAATAGGTAAATGGTTCCATGTTGC
*
4033189 CAAATCGAAGTCAACCTAAGTCTTCTTCTTGTCTTAAAGACCTCAGTTTGAATTTTAACCAGAAA
259 CAAATCGAAGTCAACCTAAGTCTTCTTCTTGGCTTAAAGACCTCAGTTTGAATTTTAACCAGAAA
* * * * * *
4033254 GTAGTTTTTCGATGCTACCATGCGATCGATGCACTATCAAGTTGAGTAGAATCGAACTCGAAAGC
324 GTAGTTTCTCGATGCTACCATGAGATCGATACACTATCAAGCTGAGCAAAATCGAACTCGAAAGC
*
4033319 TTTGGTTGACA
389 TTTGGTTGAAA
* **
4033330 GATAGCTCTT-TTCGCCTTAAGTTATGTCCGAATTTAACTGGGAAGTGGTTCATTATTGCCAAAT
1 AATAGCTCTTCTT-GCCTTAAGTTATGTCAAAATTTAACTGGGAAGTGGTTCATTATTGCCAAAT
** *
4033394 CATTGTCAACCTAAGACTTCCTCTTGGCTTAAAGACCTC-GTTTGAATTTTGACT-GAAAGATAG
65 CACAGTCAACCTAAGACTTCCTCTTAGCTTAAAGACCTCGGTTTGAATTTTGA-TAGAAAGATAG
* * *
4033457 TTCCTCGCTACTACCATGCGGTCGATGTGCTCTCGAACTGAGTGGAATCGAACTCGAAAGCTTTG
129 TTCCTCCCTACTACCATGCGGTCGATGCGCTCTCGAGCTGAGTGGAATCGAACTCGAAAGCTTTG
* *
4033522 GTCGACAAATAGCTATTCTCGCCTTAAGCTATGT-CAGAATTTAACTAGG-AAGTGGTTCCATGT
194 GTCGA-AAATAGCTCTTCTCGCCTTAAGCTATGTCCA-AATTTAA-TAGGTAAATGGTTCCATGT
* * *
4033585 TGCCAAATC-ACAGTCAACTTAAGTCTTCTTCTTGGCTTAAAGACCTCAGTTTGAATTTTGATCA
256 TGCCAAATCGA-AGTCAACCTAAGTCTTCTTCTTGGCTTAAAGACCTCAGTTTGAATTTTAACCA
* * * * * * *
4033649 GAAGGTGGTTTCTCGCTGCTACCATGAGGTTGATACACTCTCGAGCTGAGCAAAATCGAACTCGA
320 GAAAGTAGTTTCTCGATGCTACCATGAGATCGATACACTATCAAGCTGAGCAAAATCGAACTCGA
4033714 AAGCTTTGGTTGAAA
385 AAGCTTTGGTTGAAA
* * * * * *
4033729 AATATCTCTTCTTGCTTTAATTTATGTCAAAATTTGACTGGGAAGTGGTTCTTTGTTGCCAAATC
1 AATAGCTCTTCTTGCCTTAAGTTATGTCAAAATTTAACTGGGAAGTGGTTCATTATTGCCAAATC
* ** * * * *
4033794 GCAGTCAACCTTGGTCTTCTTCTTAGCTTAAAGACCTCGGTTTGAATTTTGATAGGAAGGTAGTT
66 ACAGTCAACCTAAGACTTCCTCTTAGCTTAAAGACCTCGGTTTGAATTTTGATAGAAAGATAGTT
* * *
4033859 CCTCCCTACTACTATGCGGTTGATGCGCTCTCGAGCTGAGTGGAATCAAACTCGAAAGCTTTGGT
131 CCTCCCTACTACCATGCGGTCGATGCGCTCTCGAGCTGAGTGGAATCGAACTCGAAAGCTTTGGT
* * *
4033924 TGAAAGATAACTCTTCTCGACTTAAGCTATGT
196 CGAAA-ATAGCTCTTCTCGCCTTAAGCTATGT
4033956 TGTGGATGAT
Statistics
Matches: 526, Mismatches: 89, Indels: 21
0.83 0.14 0.03
Matches are distributed among these distances:
398 7 0.01
399 358 0.68
400 161 0.31
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.33
Consensus pattern (399 bp):
AATAGCTCTTCTTGCCTTAAGTTATGTCAAAATTTAACTGGGAAGTGGTTCATTATTGCCAAATC
ACAGTCAACCTAAGACTTCCTCTTAGCTTAAAGACCTCGGTTTGAATTTTGATAGAAAGATAGTT
CCTCCCTACTACCATGCGGTCGATGCGCTCTCGAGCTGAGTGGAATCGAACTCGAAAGCTTTGGT
CGAAAATAGCTCTTCTCGCCTTAAGCTATGTCCAAATTTAATAGGTAAATGGTTCCATGTTGCCA
AATCGAAGTCAACCTAAGTCTTCTTCTTGGCTTAAAGACCTCAGTTTGAATTTTAACCAGAAAGT
AGTTTCTCGATGCTACCATGAGATCGATACACTATCAAGCTGAGCAAAATCGAACTCGAAAGCTT
TGGTTGAAA
Found at i:4035757 original size:25 final size:26
Alignment explanation
Indices: 4035729--4035789 Score: 106
Period size: 25 Copynumber: 2.4 Consensus size: 26
4035719 TGTTCCTTAG
4035729 AGCTCAATTTCCAAGAAATTG-TCTA
1 AGCTCAATTTCCAAGAAATTGATCTA
*
4035754 AGCTCAATTTCCAATAAATTGATCTA
1 AGCTCAATTTCCAAGAAATTGATCTA
4035780 AGCTCAATTT
1 AGCTCAATTT
4035790 GTGTATTCCA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 20 0.59
26 14 0.41
ACGTcount: A:0.36, C:0.20, G:0.10, T:0.34
Consensus pattern (26 bp):
AGCTCAATTTCCAAGAAATTGATCTA
Found at i:4036672 original size:32 final size:34
Alignment explanation
Indices: 4036602--4036673 Score: 87
Period size: 32 Copynumber: 2.2 Consensus size: 34
4036592 TACAAAGATG
*
4036602 TAAATGCACAATGTAAAGATACAAGAGCAGGTGA
1 TAAATGCACAATGCAAAGATACAAGAGCAGGTGA
* * *
4036636 -AAATGTA-AATGCAAAGATACAAGTGCATGT-A
1 TAAATGCACAATGCAAAGATACAAGAGCAGGTGA
4036667 TAAATGC
1 TAAATGC
4036674 TAATATAGAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
31 1 0.03
32 25 0.78
33 6 0.19
ACGTcount: A:0.47, C:0.11, G:0.21, T:0.21
Consensus pattern (34 bp):
TAAATGCACAATGCAAAGATACAAGAGCAGGTGA
Found at i:4044671 original size:55 final size:55
Alignment explanation
Indices: 4044604--4045114 Score: 708
Period size: 55 Copynumber: 9.3 Consensus size: 55
4044594 TTTATTAAGA
* *
4044604 TGCACACGTAGTGCCTATACGG-TAGTTCATCAACTCATGATGAATTCCGTGGATT
1 TGCACACATAGTGCCTGTACGGTTA-TTCATCAACTCATGATGAATTCCGTGGATT
* * *
4044659 TGCACACATAGTGCTTGTACGGTTA-T--TCAACTCATGATAAATTCCATGGATT
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
* * *
4044711 TGCACACATAGTGCATGTACAGTTATTCATCAACTCATGATGAATTTCGTGGATT
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
* *
4044766 TGCACACATAGTGCATGTACGGTTATTCATCAACTCATGATGAATTCCATGGATT
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
* *
4044821 TGCACACATAATTG-CTGTATGGTTATTCATCAACTCATGATGAATTCCGTGGATT
1 TGCACACAT-AGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
* * *
4044876 TCCACACATAGTACCTGTACGGTTATTCATTAACTCATGATGAATTCCGTGGATT
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
* * *
4044931 TGCACACATAGTGCATGTACGGTTATTCTTCAACTCATGATGAATTCTGTGGATT
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
* * * * *
4044986 TGCACACATAGTTCCTCTACGATTATTCATCAACTCATGATAAATTTCGTGGATT
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
* * * * *
4045041 TTCACACATAGTGCATGTATGGTTATTCATCAATTCATGATGAATTCTGTGGATT
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
*
4045096 TGAACACATAGTGCCTGTA
1 TGCACACATAGTGCCTGTA
4045115 GTACACTTAG
Statistics
Matches: 401, Mismatches: 49, Indels: 12
0.87 0.11 0.03
Matches are distributed among these distances:
52 47 0.12
53 1 0.00
54 3 0.01
55 345 0.86
56 5 0.01
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (55 bp):
TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
Found at i:4048609 original size:21 final size:19
Alignment explanation
Indices: 4048581--4048626 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
4048571 TCATTGAATC
4048581 ATTA-TTCTTAGCTCCTTAAT
1 ATTAGTTCTTAGCT--TTAAT
4048601 ATTAGTTCTTAGCTTTAAT
1 ATTAGTTCTTAGCTTTAAT
4048620 ACTTAGT
1 A-TTAGT
4048627 ATGATTAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 9 0.38
21 9 0.38
ACGTcount: A:0.26, C:0.15, G:0.09, T:0.50
Consensus pattern (19 bp):
ATTAGTTCTTAGCTTTAAT
Found at i:4058944 original size:21 final size:19
Alignment explanation
Indices: 4058916--4058961 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
4058906 TCATTGAATC
4058916 ATTA-TTCTTAGCTCCTTAAT
1 ATTAGTTCTTAGCT--TTAAT
4058936 ATTAGTTCTTAGCTTTAAT
1 ATTAGTTCTTAGCTTTAAT
4058955 ACTTAGT
1 A-TTAGT
4058962 AGGATTAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 9 0.38
21 9 0.38
ACGTcount: A:0.26, C:0.15, G:0.09, T:0.50
Consensus pattern (19 bp):
ATTAGTTCTTAGCTTTAAT
Found at i:4062948 original size:55 final size:55
Alignment explanation
Indices: 4062882--4063228 Score: 509
Period size: 55 Copynumber: 6.3 Consensus size: 55
4062872 TTATTAAGAG
* * * *
4062882 GCACACGTAGTGCCTATACGG-TAGTTCATTAACTCATGATGAATTCCATGGATTT
1 GCACACATAGTGCCTGTACGGTTA-TTCATCAACTCATGATGAATTCCGTGGATTT
* *
4062937 GCACACATAGTGCTTGTACGGTTATTCATCAACTCATGATGAATTCTGTGGATTT
1 GCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATTT
* * * *
4062992 GAACACATATTGCATGTGCGGTTATTCATCAACTCATGATGAATTCCGTGGATTT
1 GCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATTT
* **
4063047 GCACACATAGTGCATGT-CGGTTATTCATCAACTCATGATGAATTTTGTGGATTT
1 GCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATTT
* * *
4063101 GCATACATAGTGCTTGTACGGTTATTCATCAACTCATGATCAATTCCGTGGATTT
1 GCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATTT
* *
4063156 GCACACATAGTGCCTGTATGGTTATTCATCAACTCATGATGAATTCCGTGGGTTT
1 GCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATTT
4063211 GCACACATAGTGCCTGTA
1 GCACACATAGTGCCTGTA
4063229 GTACACTTAG
Statistics
Matches: 265, Mismatches: 25, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
54 50 0.19
55 213 0.80
56 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (55 bp):
GCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATTT
Found at i:4063183 original size:164 final size:164
Alignment explanation
Indices: 4062906--4063223 Score: 519
Period size: 164 Copynumber: 1.9 Consensus size: 164
4062896 TATACGGTAG
*
4062906 TTCATTAACTCATGATGAATTCCATGGATTTGCACACATAGTGCTTGTACGGTTATTCATCAACT
1 TTCATCAACTCATGATGAATTCCATGGATTTGCACACATAGTGCTTGTACGGTTATTCATCAACT
* * * *
4062971 CATGATGAATTCTGTGGATTTGAACACATATTGCATGTGCGGTTATTCATCAACTCATGATGAAT
66 CATGATCAATTCCGTGGATTTGAACACATAGTGCATGTACGGTTATTCATCAACTCATGATGAAT
4063036 TCCGTGGATTTGCACACATAGTGCATGTCGGTTA
131 TCCGTGGATTTGCACACATAGTGCATGTCGGTTA
*** *
4063070 TTCATCAACTCATGATGAATTTTGTGGATTTGCATACATAGTGCTTGTACGGTTATTCATCAACT
1 TTCATCAACTCATGATGAATTCCATGGATTTGCACACATAGTGCTTGTACGGTTATTCATCAACT
* * *
4063135 CATGATCAATTCCGTGGATTTGCACACATAGTGCCTGTATGGTTATTCATCAACTCATGATGAAT
66 CATGATCAATTCCGTGGATTTGAACACATAGTGCATGTACGGTTATTCATCAACTCATGATGAAT
*
4063200 TCCGTGGGTTTGCACACATAGTGC
131 TCCGTGGATTTGCACACATAGTGC
4063224 CTGTAGTACA
Statistics
Matches: 141, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
164 141 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (164 bp):
TTCATCAACTCATGATGAATTCCATGGATTTGCACACATAGTGCTTGTACGGTTATTCATCAACT
CATGATCAATTCCGTGGATTTGAACACATAGTGCATGTACGGTTATTCATCAACTCATGATGAAT
TCCGTGGATTTGCACACATAGTGCATGTCGGTTA
Found at i:4067446 original size:44 final size:44
Alignment explanation
Indices: 4067391--4067567 Score: 255
Period size: 44 Copynumber: 4.0 Consensus size: 44
4067381 ATACCATGAG
*
4067391 TGGCACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTA
1 TGGCACTTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTA
* * * *
4067435 TGGCATTTTTCTTCCAATAATGCACTGTTATGCCTTTTCATTTA
1 TGGCACTTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTA
* *
4067479 TTGCACTTTTCAGCCAATAATGCACCGTTATGCATTTTCATTTA
1 TGGCACTTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTA
* * * *
4067523 TGGCACCTATCTGCCAATAAAGCACAGTTATGCATTTTCATTTA
1 TGGCACTTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTA
4067567 T
1 T
4067568 TTCGATAACA
Statistics
Matches: 116, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 116 1.00
ACGTcount: A:0.24, C:0.23, G:0.12, T:0.41
Consensus pattern (44 bp):
TGGCACTTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTA
Found at i:4073421 original size:44 final size:44
Alignment explanation
Indices: 4073371--4073547 Score: 291
Period size: 44 Copynumber: 4.0 Consensus size: 44
4073361 ATACCATGAG
* *
4073371 TGGCACCTTTCTTCCAATAATGCACTATTATGCATTTTCATTTA
1 TGGCACCTTTCTGCCAATAATGCACCATTATGCATTTTCATTTA
*
4073415 TGGCACCTTTCTGCCAATAATGCACCATTATGTATTTTCATTTA
1 TGGCACCTTTCTGCCAATAATGCACCATTATGCATTTTCATTTA
* *
4073459 TGGCACATTTCTGCCAATAATGCACCATTATGCATTTTTATTTA
1 TGGCACCTTTCTGCCAATAATGCACCATTATGCATTTTCATTTA
* *
4073503 TGGCATCTTTCTGCAAATAATGCACCATTATGCATTTTCATTTA
1 TGGCACCTTTCTGCCAATAATGCACCATTATGCATTTTCATTTA
4073547 T
1 T
4073548 TTCGGTAACA
Statistics
Matches: 123, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 123 1.00
ACGTcount: A:0.26, C:0.21, G:0.11, T:0.42
Consensus pattern (44 bp):
TGGCACCTTTCTGCCAATAATGCACCATTATGCATTTTCATTTA
Found at i:4074110 original size:18 final size:20
Alignment explanation
Indices: 4074087--4074134 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 20
4074077 AGAATCCATG
*
4074087 GTATCGATACT-CA-CATCA
1 GTATCGATACTAAAGCATCA
4074105 GTATCGATACTAAATGCATCA
1 GTATCGATACTAAA-GCATCA
4074126 GTATCGATA
1 GTATCGATA
4074135 TTGTTCATCA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 11 0.42
19 1 0.04
21 14 0.54
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (20 bp):
GTATCGATACTAAAGCATCA
Found at i:4075404 original size:26 final size:28
Alignment explanation
Indices: 4075347--4075404 Score: 68
Period size: 26 Copynumber: 2.2 Consensus size: 28
4075337 AAATATTAAA
*
4075347 ATAAATAATAAAATAGAAAGAACCAAAT
1 ATAAATAATAAAATAGAAAGAACAAAAT
* *
4075375 -TAAA-AATAAAATA-TAATAACAAAAT
1 ATAAATAATAAAATAGAAAGAACAAAAT
4075400 ATAAA
1 ATAAA
4075405 GAAAATAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
25 9 0.35
26 13 0.50
27 4 0.15
ACGTcount: A:0.71, C:0.05, G:0.03, T:0.21
Consensus pattern (28 bp):
ATAAATAATAAAATAGAAAGAACAAAAT
Found at i:4076688 original size:87 final size:87
Alignment explanation
Indices: 4076557--4076732 Score: 325
Period size: 87 Copynumber: 2.0 Consensus size: 87
4076547 TATAAATAAT
*
4076557 TAGTGTTAATAAAACTCATTTATTATTATAATAATAGATATTAATTATAACATTATTAATAAATA
1 TAGTGTTAATAAAACCCATTTATTATTATAATAATAGATATTAATTATAACATTATTAATAAATA
4076622 TAATAAATAATAAAAATTTTAA
66 TAATAAATAATAAAAATTTTAA
*
4076644 TAGTGTTAATAAAACCCATTTATTATTATAATAATCGATATTAATTATAACATTATTAATAAATA
1 TAGTGTTAATAAAACCCATTTATTATTATAATAATAGATATTAATTATAACATTATTAATAAATA
*
4076709 TAATAAATAATAACAATTTTAA
66 TAATAAATAATAAAAATTTTAA
4076731 TA
1 TA
4076733 ATGAGTATTA
Statistics
Matches: 86, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
87 86 1.00
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (87 bp):
TAGTGTTAATAAAACCCATTTATTATTATAATAATAGATATTAATTATAACATTATTAATAAATA
TAATAAATAATAAAAATTTTAA
Found at i:4076745 original size:28 final size:27
Alignment explanation
Indices: 4076668--4076745 Score: 72
Period size: 28 Copynumber: 2.8 Consensus size: 27
4076658 CCCATTTATT
*
4076668 ATTA-TAATAATCGATATTAATTATAAC
1 ATTATTAATAAT-GATATTAATAATAAC
*
4076695 ATTATTAATAAAT-ATAATAAATAATAAC
1 ATTATTAAT-AATGAT-ATTAATAATAAC
4076723 AATT-TTAATAATGAGTATTAATA
1 -ATTATTAATAATGA-TATTAATA
4076746 TTACATAATA
Statistics
Matches: 42, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
27 9 0.21
28 26 0.62
29 7 0.17
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.40
Consensus pattern (27 bp):
ATTATTAATAATGATATTAATAATAAC
Found at i:4077808 original size:200 final size:200
Alignment explanation
Indices: 4077393--4078354 Score: 900
Period size: 200 Copynumber: 4.8 Consensus size: 200
4077383 TAATTTTTCA
* * * * * * * *
4077393 TTGCTAAATCCTAGTCAACCTAGGTCGTCTTCTTGGCATAAAGAGCC-CGGTTTAAAATTTGAGC
1 TTGCCAAATCGTAGTCAACCTAAGTCTTCTTCTTGGCTTAAAGA-CCTCGGTTTGAATTTTGACC
* * *** ** * * ** *
4077457 -AGAAGGTAGTTCCTCAATGCTA-TAGGTGGTTAATGCACTCTCGAGTTGAGTGGAATTGAACTC
65 GA-AAGGTAGTTCCTCACTGCTACCATACGGTCGATGCGCTCTCGAGCTGAGTGGAATCAAACTT
** * * * *
4077520 GAAATATTT-GTCGATAGATAACTCTTCTCGA-CTAAAGCTATGTCTA-AATTTGA-TTGAGAAG
129 GAAAGCTTTGGTCGACAGATAGCTCTTCTC-ACCTTAAGCTATGT-TAGAATTTGACTAG-GAAG
4077581 TGGTTCCTTG
191 TGGTTCCTTG
* * *
4077591 TTTCCAAATCATAGTCAACCTATGTCTTCTTCTTGGCTTAAAGACCTCGGTTTGAATTTTGACCG
1 TTGCCAAATCGTAGTCAACCTAAGTCTTCTTCTTGGCTTAAAGACCTCGGTTTGAATTTTGACCG
* * * * * ** *
4077656 GAAGATAGTTCCTCACTGCTACCATGCGGTCGACGTGCTCTC-ATATTGAGTGGAATCAAACTTA
66 AAAGGTAGTTCCTCACTGCTACCATACGGTCGATGCGCTCTCGA-GCTGAGTGGAATCAAACTTG
* * *
4077720 AAAGCTTTGGTCGACAGATAGCTCTTTTCACCTTAAGCTATGTTAGAATTTAACTGGGAAGTGGT
130 AAAGCTTTGGTCGACAGATAGCTCTTCTCACCTTAAGCTATGTTAGAATTTGACTAGGAAGTGGT
*
4077785 TCATTG
195 TCCTTG
* * *
4077791 TTGCCAAATCGTAGTCAACCTAAGTCTTTTTCTTGGCTTAAATACCTCGGTTTGAATTTTGATCG
1 TTGCCAAATCGTAGTCAACCTAAGTCTTCTTCTTGGCTTAAAGACCTCGGTTTGAATTTTGACCG
* * * * * *
4077856 AAATGTAGTTCATCACTGCTACCATACGGTCGATGCGCTCTCGAGCTGAATGCAATCGAACTCGA
66 AAAGGTAGTTCCTCACTGCTACCATACGGTCGATGCGCTCTCGAGCTGAGTGGAATCAAACTTGA
* * * * *
4077921 AAGCTTTGGTCAACAGATAGCTCTTATTACCTTAAGCTATGTCAGAATTTGACAAGGAAGTGGTT
131 AAGCTTTGGTCGACAGATAGCTCTTCTCACCTTAAGCTATGTTAGAATTTGACTAGGAAGTGGTT
*
4077986 CTTTG
196 CCTTG
* * * * *
4077991 TT-TCATAATCGCAATCAACTTAAGTCTTCTTCTT-GCATTAAAGACCTCAGTTTGAATTTTGAC
1 TTGCCA-AATCGTAGTCAACCTAAGTCTTCTTCTTGGC-TTAAAGACCTCGGTTTGAATTTTGAC
** * * * * * *
4078054 CGAAAGGTAGTTCCTTGCTGCTACAATGCGGTCGATGCCCCCTTGAGCTAAGTGG----AAAC--
64 CGAAAGGTAGTTCCTCACTGCTACCATACGGTCGATGCGCTCTCGAGCTGAGTGGAATCAAACTT
* * ** *
4078113 GAAAGCTTTGGTTGACAAATAGCTCTTCTCGTCTTAAACTATGTT-GAAATTTGACTAGGAAGTG
129 GAAAGCTTTGGTCGACAGATAGCTCTTCTCACCTTAAGCTATGTTAG-AATTTGACTAGGAAGTG
4078177 GTTCCTTG
193 GTTCCTTG
* * * ** * * *
4078185 TTGGCAAATCGTAGTCAACCTAGGTCTTCTTCTTGGCTTAAATAAGTCGATTTAAATTTTGACTG
1 TTGCCAAATCGTAGTCAACCTAAGTCTTCTTCTTGGCTTAAAGACCTCGGTTTGAATTTTGACCG
* * * * *
4078250 GAAGGTAGTTCCTCACTGCTACCATACGGTTGATGCGCTCCCGAGCTAAGTGGAATCGAACTCT-
66 AAAGGTAGTTCCTCACTGCTACCATACGGTCGATGCGCTCTCGAGCTGAGTGGAATCAAACT-TG
*
4078314 AAAGCTTTGGTTGACAGATAGCTCTTCTCGA-CTTAAGCTAT
130 AAAGCTTTGGTCGACAGATAGCTCTTCTC-ACCTTAAGCTAT
4078355 ATTTTGGATG
Statistics
Matches: 622, Mismatches: 120, Indels: 42
0.79 0.15 0.05
Matches are distributed among these distances:
193 1 0.00
194 149 0.24
195 4 0.01
196 3 0.00
197 2 0.00
198 74 0.12
199 40 0.06
200 346 0.56
201 3 0.00
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (200 bp):
TTGCCAAATCGTAGTCAACCTAAGTCTTCTTCTTGGCTTAAAGACCTCGGTTTGAATTTTGACCG
AAAGGTAGTTCCTCACTGCTACCATACGGTCGATGCGCTCTCGAGCTGAGTGGAATCAAACTTGA
AAGCTTTGGTCGACAGATAGCTCTTCTCACCTTAAGCTATGTTAGAATTTGACTAGGAAGTGGTT
CCTTG
Found at i:4078288 original size:394 final size:397
Alignment explanation
Indices: 4077393--4078354 Score: 1024
Period size: 394 Copynumber: 2.4 Consensus size: 397
4077383 TAATTTTTCA
* * * * * * *
4077393 TTGCTAAATCCTAGTCAACCTAGGTCGTCTTCTTGGCATAAA-GAGCCCGGTTTAAAATTTGAGC
1 TTGCCAAATCGTAGTCAACCTAGGTCTTCTTCTTGGCTTAAATAAG-TCGGTTTAAATTTTGA-C
* * * *** * * * * *
4077457 -AGAAGGTAGTTCCTCAATGCTA-TAGGTGGTTAATGCACTCTCGAGTTGAGTGGAATTGAACTC
64 TGGAAGGTAGTTCCTCACTGCTACCATACGGTTGATGCGCTCTCGAGCTGAATGGAATCGAACTC
** * * * **
4077520 GAAATATTT-GTCGATAGATAACTCTTCTCGACTAAAGCTATGTCTAAATTTGATTGAGAAGTGG
129 GAAAGCTTTGGTCGACAGATAGCTCTTATCGACTAAAGCTATGTCTAAATTTGAAAGAGAAGTGG
* * * *
4077584 TTCCTTGTTTCCAAATCATAGTCAACCTATGTCTTCTTCTTGGCTTAAAGACCTCGGTTTGAATT
194 TTCCTTGTTTCCAAATCACAATCAACCTAAGTCTTCTTCTTGGCTTAAAGACCTCAGTTTGAATT
* * *
4077649 TTGACCGGAAGATAGTTCCTCACTGCTACCATGCGGTCGACGTGCTCTCATATTGAGTGGAATCA
259 TTGACCGAAAGATAGTTCCTCACTGCTACAATGCGGTCGAC-TGCTCTCACATTGAGT-GAATCA
* * * *
4077714 AACTTAAAAGCTTTGGTCGACAGATAGCTCTTTTCACCTTAAGCTATGTTAGAATTTAACTGGGA
322 AAC-TAAAAGCTTTGGTCGACAAATAGCTCTTCTCACCTTAAACTATGTTAGAATTTAACTAGGA
4077779 AGTGGTTCATTG
386 AGTGGTTCATTG
* * ** *
4077791 TTGCCAAATCGTAGTCAACCTAAGTCTTTTTCTTGGCTTAAATACCTCGGTTTGAATTTTGA-TC
1 TTGCCAAATCGTAGTCAACCTAGGTCTTCTTCTTGGCTTAAATAAGTCGGTTTAAATTTTGACT-
* * * * *
4077855 GAAATGTAGTTCATCACTGCTACCATACGGTCGATGCGCTCTCGAGCTGAATGCAATCGAACTCG
65 GGAAGGTAGTTCCTCACTGCTACCATACGGTTGATGCGCTCTCGAGCTGAATGGAATCGAACTCG
* * *
4077920 AAAGCTTTGGTCAACAGATAGCTCTTAT-TACCTTAAGCTATGTC-AGAATTTGACAAG-GAAGT
130 AAAGCTTTGGTCGACAGATAGCTCTTATCGA-CTAAAGCTATGTCTA-AATTTGA-AAGAGAAGT
* * *
4077982 GGTTCTTTGTTT-CATAATCGCAATCAACTTAAGTCTTCTTCTT-GCATTAAAGACCTCAGTTTG
192 GGTTCCTTGTTTCCA-AATCACAATCAACCTAAGTCTTCTTCTTGGC-TTAAAGACCTCAGTTTG
* ** *
4078045 AATTTTGACCGAAAGGTAGTTCCTTGCTGCTACAATGCGGTCGA-TGC-C-C-CCTTGAGCT-AA
255 AATTTTGACCGAAAGATAGTTCCTCACTGCTACAATGCGGTCGACTGCTCTCACATTGAG-TGAA
* * * ** *
4078105 GTGGAAAC-GAAAGCTTTGGTTGACAAATAGCTCTTCTCGTCTTAAACTATGTT-GAAATTTGAC
319 -T-CAAACTAAAAGCTTTGGTCGACAAATAGCTCTTCTCACCTTAAACTATGTTAG-AATTTAAC
*
4078168 TAGGAAGTGGTTCCTTG
381 TAGGAAGTGGTTCATTG
* *
4078185 TTGGCAAATCGTAGTCAACCTAGGTCTTCTTCTTGGCTTAAATAAGTCGATTTAAATTTTGACTG
1 TTGCCAAATCGTAGTCAACCTAGGTCTTCTTCTTGGCTTAAATAAGTCGGTTTAAATTTTGACTG
* *
4078250 GAAGGTAGTTCCTCACTGCTACCATACGGTTGATGCGCTCCCGAGCT-AAGTGGAATCGAACTCT
66 GAAGGTAGTTCCTCACTGCTACCATACGGTTGATGCGCTCTCGAGCTGAA-TGGAATCGAACTCG
* * *
4078314 AAAGCTTTGGTTGACAGATAGCTCTTCTCGACTTAAGCTAT
130 AAAGCTTTGGTCGACAGATAGCTCTTATCGACTAAAGCTAT
4078355 ATTTTGGATG
Statistics
Matches: 466, Mismatches: 81, Indels: 38
0.80 0.14 0.06
Matches are distributed among these distances:
393 3 0.01
394 207 0.44
395 8 0.02
396 6 0.01
397 1 0.00
398 69 0.15
399 43 0.09
400 128 0.27
401 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (397 bp):
TTGCCAAATCGTAGTCAACCTAGGTCTTCTTCTTGGCTTAAATAAGTCGGTTTAAATTTTGACTG
GAAGGTAGTTCCTCACTGCTACCATACGGTTGATGCGCTCTCGAGCTGAATGGAATCGAACTCGA
AAGCTTTGGTCGACAGATAGCTCTTATCGACTAAAGCTATGTCTAAATTTGAAAGAGAAGTGGTT
CCTTGTTTCCAAATCACAATCAACCTAAGTCTTCTTCTTGGCTTAAAGACCTCAGTTTGAATTTT
GACCGAAAGATAGTTCCTCACTGCTACAATGCGGTCGACTGCTCTCACATTGAGTGAATCAAACT
AAAAGCTTTGGTCGACAAATAGCTCTTCTCACCTTAAACTATGTTAGAATTTAACTAGGAAGTGG
TTCATTG
Found at i:4081649 original size:28 final size:28
Alignment explanation
Indices: 4081618--4081671 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
4081608 ATTGTACATT
4081618 TATTCT-TTATATAATATAAATATAAATA
1 TATTCTATTATATAAT-TAAATATAAATA
* *
4081646 TATTCTATTGTTTAATTAAATATAAA
1 TATTCTATTATATAATTAAATATAAA
4081672 CTAAACTTCG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 16 0.70
29 7 0.30
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (28 bp):
TATTCTATTATATAATTAAATATAAATA
Found at i:4082232 original size:19 final size:19
Alignment explanation
Indices: 4082208--4082261 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
4082198 ATATTTTTTA
4082208 AAAATATATAAAAAATACC
1 AAAATATATAAAAAATACC
* * *
4082227 AAAATAAATATTAAAATATC
1 AAAATATATA-AAAAATACC
4082247 AAAACTATATTAAAA
1 AAAA-TATA-TAAAA
4082262 TACTTAAATA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
19 9 0.33
20 11 0.41
21 5 0.19
22 2 0.07
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.26
Consensus pattern (19 bp):
AAAATATATAAAAAATACC
Found at i:4082242 original size:20 final size:19
Alignment explanation
Indices: 4082219--4082264 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
4082209 AAATATATAA
4082219 AAAATACCAAAA-TAAATATT
1 AAAATACCAAAACT--ATATT
*
4082239 AAAATATCAAAACTATATT
1 AAAATACCAAAACTATATT
4082258 AAAATAC
1 AAAATAC
4082265 TTAAATACTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 11 0.48
20 11 0.48
21 1 0.04
ACGTcount: A:0.63, C:0.11, G:0.00, T:0.26
Consensus pattern (19 bp):
AAAATACCAAAACTATATT
Found at i:4083180 original size:4 final size:4
Alignment explanation
Indices: 4083171--4083196 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
4083161 TTTGCAGCCA
4083171 TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TT
4083197 TTGCCTTTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:4083691 original size:23 final size:23
Alignment explanation
Indices: 4083665--4083714 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
4083655 ATTAAGTTCA
*
4083665 ATAACATATTAGGTAACGCTTAT
1 ATAACATAATAGGTAACGCTTAT
** *
4083688 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAACGCTTAT
4083711 ATAA
1 ATAA
4083715 TAAAATAAAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.40, C:0.10, G:0.16, T:0.34
Consensus pattern (23 bp):
ATAACATAATAGGTAACGCTTAT
Found at i:4083721 original size:23 final size:23
Alignment explanation
Indices: 4083674--4083721 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
4083664 AATAACATAT
**
4083674 TAGGTAACGCTTATATAATGTAA
1 TAGGTAACGCTTATATAATAAAA
*
4083697 TAGGTAGCGCTTATATAATAAAA
1 TAGGTAACGCTTATATAATAAAA
4083720 TA
1 TA
4083722 AACATTTAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.42, C:0.08, G:0.17, T:0.33
Consensus pattern (23 bp):
TAGGTAACGCTTATATAATAAAA
Found at i:4083786 original size:87 final size:87
Alignment explanation
Indices: 4083637--4083799 Score: 265
Period size: 87 Copynumber: 1.9 Consensus size: 87
4083627 TATGTTATAT
* *
4083637 CATTTAACCGGAAATATGATTAAGTTCAATAACATATTAGGTAACGCTTATATAATGTAATAGGT
1 CATTTAACCGGAAATATGATCAAGTTCAATAACATATTAGGTAACGCTTATATAATGCAATAGGT
4083702 AGCGCTTATATAATAAAATAAA
66 AGCGCTTATATAATAAAATAAA
* * *
4083724 CATTTAACCGGAAATATTATCAAGTAT-AATAACATATTAGGTAGCGTTTATATAATGCAATAGG
1 CATTTAACCGGAAATATGATCAAGT-TCAATAACATATTAGGTAACGCTTATATAATGCAATAGG
4083788 TAGCGCTTATAT
65 TAGCGCTTATAT
4083800 TGACCTATTT
Statistics
Matches: 70, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
87 69 0.99
88 1 0.01
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.33
Consensus pattern (87 bp):
CATTTAACCGGAAATATGATCAAGTTCAATAACATATTAGGTAACGCTTATATAATGCAATAGGT
AGCGCTTATATAATAAAATAAA
Found at i:4085798 original size:19 final size:19
Alignment explanation
Indices: 4085774--4085821 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
4085764 TTACATTCAC
*
4085774 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCAT
*
4085793 ATACAAAATTATGAATCAT
1 ATACAAAATTATAAATCAT
4085812 ATACAAAATT
1 ATACAAAATT
4085822 TCCTCTCTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCAT
Found at i:4091769 original size:22 final size:21
Alignment explanation
Indices: 4091724--4091781 Score: 57
Period size: 20 Copynumber: 2.8 Consensus size: 21
4091714 ATGTAGACCT
* *
4091724 ATTTTCTAATTA-ATTGGTAT
1 ATTTTCCAATTACATTGGTAA
4091744 ATTTCTACCAATTACATTGG-AA
1 ATTT-T-CCAATTACATTGGTAA
*
4091766 ATTTTCCTATTACATT
1 ATTTTCCAATTACATT
4091782 TTATTTATCA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
20 14 0.44
21 2 0.06
22 11 0.34
23 5 0.16
ACGTcount: A:0.31, C:0.14, G:0.07, T:0.48
Consensus pattern (21 bp):
ATTTTCCAATTACATTGGTAA
Found at i:4092474 original size:198 final size:198
Alignment explanation
Indices: 4091711--4093648 Score: 2504
Period size: 198 Copynumber: 9.8 Consensus size: 198
4091701 GGGTATTACA
** ** * * *
4091711 ATTATGTAGACCTATTTTCTAATTAATTGGTATATTTCTACCAATTACATTGGAAATTTTCCTAT
1 ATTATGTAGACCTATTTTCTAATTAACCGGTATATTTCTACCGGTTACATTGTAAAGTTACCTAT
* * ** **
4091776 TACATTTTATTTATCAATTTCGATGTTTTTGGGATCGATACTTTTTATAAATGTATCGACACTTT
66 TACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACAATTT-TAAATGTATCGACACTTT
* * * ** * *
4091841 ATTCGTACACCCCATTGGGTATT-ATTTCT-G-------G--TCGACACAAATTTAAAAAGTGTC
130 ATGCGTGCACTCTTTTAGGCATTCA-TTCTGGACAAAAAGTATCGACACAAATTTAAAAAGTGTC
4091895 GATAC
194 GATAC
* * * *
4091900 GTTATGTAGACCTATTTTCTAATTAACCGATATATTTCTACCGGTTACATTCTAAAGTTTCCTAT
1 ATTATGTAGACCTATTTTCTAATTAACCGGTATATTTCTACCGGTTACATTGTAAAGTTACCTAT
*
4091965 TACATTATAATTATCGGTTTCGATGCTTTTT-GAATCGATACAA-TTTAAATGTATCGACACTTT
66 TACATTATAATTATCGGTTTCGATG-TTTTTGGGATCGATACAATTTTAAATGTATCGACACTTT
* *
4092028 ATGTGTGCACTCTTTTAGGCATTCATTCTGGACAAAAAGTATCGACACAAA-TTACACAAGTGTC
130 ATGCGTGCACTCTTTTAGGCATTCATTCTGGACAAAAAGTATCGACACAAATTTA-AAAAGTGTC
4092092 GATAC
194 GATAC
* * *
4092097 ATGATGTAGACCTATTTTCTAATTAACCGGTATATTTCTATCGGTTACATTGTAAAGTTACATAT
1 ATTATGTAGACCTATTTTCTAATTAACCGGTATATTTCTACCGGTTACATTGTAAAGTTACCTAT
* * *
4092162 TACATTATAATTATCAGTTTCGAT-TTTTTGGAATCGATACAATTTTAAATGTATTGACACTTTA
66 TACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACAATTTTAAATGTATCGACACTTTA
* * *
4092226 TGCATACACTCTTTTAGGCATTCATTCTGGACAAAAAGTATCGACACAAATTTAAAAAGTGTTGA
131 TGCGTGCACTCTTTTAGGCATTCATTCTGGACAAAAAGTATCGACACAAATTTAAAAAGTGTCGA
4092291 TAC
196 TAC
* *
4092294 GTTATGTAGACCTATTTTCTAATTAACTGGTATATTTCTACCGGTTACATTGTAAAGTTACCTAT
1 ATTATGTAGACCTATTTTCTAATTAACCGGTATATTTCTACCGGTTACATTGTAAAGTTACCTAT
*
4092359 TACATTATAATTATCGGTTTCGATGTTTTTGGGATAGATACAATTTTAAATGTATCGACACTTTA
66 TACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACAATTTTAAATGTATCGACACTTTA
*
4092424 TGCGTGCACTCTTTTAGGCATTCATTCTGGACAAAAAGTATCGACACAAA-TTACACAAGTGTCG
131 TGCGTGCACTCTTTTAGGCATTCATTCTGGACAAAAAGTATCGACACAAATTTA-AAAAGTGTCG
4092488 ATAC
195 ATAC
*
4092492 ATGATGTAGACCTATTTTCTAATTAACCGGTATATTTCTACCGGTTACATTGTAAAGTTACCTAT
1 ATTATGTAGACCTATTTTCTAATTAACCGGTATATTTCTACCGGTTACATTGTAAAGTTACCTAT
* * *
4092557 TACATTATAATTATCGGTTTCGATATTTTTGGAATCGATACAATTTTAAATATATCGACACTTTA
66 TACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACAATTTTAAATGTATCGACACTTTA
* * * *
4092622 TACGTACACTCTTTTAGGAATTCATTCTGGACAAAAAGTATCGACACAAATTTAAAAAGTGTTGA
131 TGCGTGCACTCTTTTAGGCATTCATTCTGGACAAAAAGTATCGACACAAATTTAAAAAGTGTCGA
*
4092687 TTC
196 TAC
* * **
4092690 GTTATGTAGACATATTTTCTAATTAACTAGTATATTTCTACCGGTTACATTGTAAAGTTACCTAT
1 ATTATGTAGACCTATTTTCTAATTAACCGGTATATTTCTACCGGTTACATTGTAAAGTTACCTAT
* *
4092755 TACATTATAATTATCGGTTTCAATGTTTTTGGGATTGATACAATTTTAAATGTATCGACACTTTA
66 TACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACAATTTTAAATGTATCGACACTTTA
* *
4092820 TGCGTGCACTCTTTTAGGCATTCATTCTGGACAAAAAGTATCGTCACAAA-TTACACAAGTGTCG
131 TGCGTGCACTCTTTTAGGCATTCATTCTGGACAAAAAGTATCGACACAAATTTA-AAAAGTGTCG
4092884 ATAC
195 ATAC
* * * * *
4092888 ATGATGTAGACCTATTTTCTAATTAACGGGTATATTTATGCGGGTTACATTGTAAAGTTACCTAT
1 ATTATGTAGACCTATTTTCTAATTAACCGGTATATTTCTACCGGTTACATTGTAAAGTTACCTAT
* *
4092953 TACATTATAATTAGCGGTTTCGATGTTTTTGGAATCGATACAATTTTAAATGTATCGACACTTTA
66 TACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACAATTTTAAATGTATCGACACTTTA
* * *
4093018 TGTGTGCACTCTTTTAGGCATTCATTCTGGACAAAAAGTATCGACACAAA-TTACATAAGTTTCG
131 TGCGTGCACTCTTTTAGGCATTCATTCTGGACAAAAAGTATCGACACAAATTTA-AAAAGTGTCG
4093082 ATAC
195 ATAC
* * * * *
4093086 ATGATGTAGACCTATTCTCTAATTAACCGGTATATTTCTACTGGTTACATTGGAAATTTACCTAT
1 ATTATGTAGACCTATTTTCTAATTAACCGGTATATTTCTACCGGTTACATTGTAAAGTTACCTAT
* * * * **
4093151 TATATTATATTTATTGGTTTCGATGTTTTTGGGATTGATACGTTTTATAAATGTATCGACACTTT
66 TACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACAATTT-TAAATGTATCGACACTTT
* * * * * * * *
4093216 ATTCGTGCAC-CTCGTTGGGCATTCATTCTGGTCAAAACGTATTGACACAACTTTAAAAAGAGTC
130 ATGCGTGCACTCT-TTTAGGCATTCATTCTGGACAAAAAGTATCGACACAAATTTAAAAAGTGTC
4093280 GATAC
194 GATAC
* * * * ** *
4093285 ATTATGTACACCTATTTTCTAAGTAACAGGAATATTTCTATTGGTTACATTGGAAA-TTGACCTA
1 ATTATGTAGACCTATTTTCTAATTAACCGGTATATTTCTACCGGTTACATTGTAAAGTT-ACCTA
* * **
4093349 TTACATTATAATTATC-TTATTCGATTTTTTTGGGATCGATACTTTTTATAAATGTATCGACACT
65 TTACATTATAATTATCGGT-TTCGATGTTTTTGGGATCGATACAATTT-TAAATGTATCGACACT
** ** *
4093413 TTATTTGTGCACCTCGGTT-GGTCATTCATTCTGGAGAAAAAGTATCGACAC-AATTTAAAAAGT
128 TTATGCGTGCA-CTCTTTTAGG-CATTCATTCTGGACAAAAAGTATCGACACAAATTTAAAAAGT
*
4093476 GTCGATAT
191 GTCGATAC
* * * * *
4093484 ATTATGTAGACCTATTTTCTAATTAATCGATATATATATATACCGTTTACATTGTAAATTTACCT
1 ATTATGTAGACCTATTTTCTAATTAACCGGTATAT-T-TCTACCGGTTACATTGTAAAGTTACCT
* *
4093549 ATTACATTATAATTATC-TTATTCGATGTTTTTGGGATCGATAC-TTTTAATAAATGTATCGACA
64 ATTACATTATAATTATCGGT-TTCGATGTTTTTGGGATCGATACAATTT--TAAATGTATCGACA
* * *
4093612 CTTTATTCGTGCACCTCGTTTGGGCATTCATTCTGGA
126 CTTTATGCGTGCA-CTCTTTTAGGCATTCATTCTGGA
4093649 GATTACTGAA
Statistics
Matches: 1555, Mismatches: 161, Indels: 54
0.88 0.09 0.03
Matches are distributed among these distances:
187 37 0.02
188 4 0.00
189 86 0.06
190 5 0.00
195 6 0.00
196 15 0.01
197 272 0.17
198 741 0.48
199 239 0.15
200 37 0.02
201 109 0.07
202 4 0.00
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.40
Consensus pattern (198 bp):
ATTATGTAGACCTATTTTCTAATTAACCGGTATATTTCTACCGGTTACATTGTAAAGTTACCTAT
TACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACAATTTTAAATGTATCGACACTTTA
TGCGTGCACTCTTTTAGGCATTCATTCTGGACAAAAAGTATCGACACAAATTTAAAAAGTGTCGA
TAC
Found at i:4094955 original size:24 final size:24
Alignment explanation
Indices: 4094892--4094944 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
4094882 AGTAGAGCCG
*
4094892 AAATTTATATTGAAATTCAAACTC
1 AAATTTAAATTGAAATTCAAACTC
*
4094916 AAATTTAAATTTAAATTCAAACTC
1 AAATTTAAATTGAAATTCAAACTC
*
4094940 CAATT
1 AAATT
4094945 ACATATGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.47, C:0.13, G:0.02, T:0.38
Consensus pattern (24 bp):
AAATTTAAATTGAAATTCAAACTC
Found at i:4095813 original size:3 final size:3
Alignment explanation
Indices: 4095795--4095845 Score: 63
Period size: 3 Copynumber: 17.7 Consensus size: 3
4095785 TAAAAATATA
*
4095795 TAT TA- TAT TGAT TAT TAT TAT TAT TAT TAT TA- TAT TAA TA- TAT
1 TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
4095838 TAT TAT TA
1 TAT TAT TA
4095846 ATAATACTAA
Statistics
Matches: 43, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
2 6 0.14
3 34 0.79
4 3 0.07
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:4099516 original size:21 final size:21
Alignment explanation
Indices: 4099487--4099562 Score: 100
Period size: 21 Copynumber: 3.6 Consensus size: 21
4099477 TATATATAGT
* *
4099487 CATTTATAAGGACGAGAAGAC
1 CATTCATAAAGACGAGAAGAC
*
4099508 CATTCATAAAGACGAGAAGAG
1 CATTCATAAAGACGAGAAGAC
4099529 CATTCATAAAGAC-ATGAAGAC
1 CATTCATAAAGACGA-GAAGAC
*
4099550 CCTTCATAAAGAC
1 CATTCATAAAGAC
4099563 ATGAAGATCA
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
20 1 0.02
21 48 0.98
ACGTcount: A:0.45, C:0.18, G:0.18, T:0.18
Consensus pattern (21 bp):
CATTCATAAAGACGAGAAGAC
Found at i:4099563 original size:21 final size:21
Alignment explanation
Indices: 4099502--4099574 Score: 103
Period size: 21 Copynumber: 3.5 Consensus size: 21
4099492 ATAAGGACGA
4099502 GAAGACCATTCATAAAGACGA-
1 GAAGACCATTCATAAAGAC-AT
*
4099523 GAAGAGCATTCATAAAGACAT
1 GAAGACCATTCATAAAGACAT
*
4099544 GAAGACCCTTCATAAAGACAT
1 GAAGACCATTCATAAAGACAT
*
4099565 GAAGATCATT
1 GAAGACCATT
4099575 TCACATTGGA
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
20 1 0.02
21 45 0.98
ACGTcount: A:0.45, C:0.18, G:0.18, T:0.19
Consensus pattern (21 bp):
GAAGACCATTCATAAAGACAT
Found at i:4099837 original size:7 final size:7
Alignment explanation
Indices: 4099819--4099851 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
4099809 TAACACCTCG
4099819 TGCA-TT
1 TGCATTT
*
4099825 TGCATTC
1 TGCATTT
4099832 TGCATTT
1 TGCATTT
4099839 TGCATTT
1 TGCATTT
4099846 TGCATT
1 TGCATT
4099852 GCATGTATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
6 4 0.17
7 20 0.83
ACGTcount: A:0.15, C:0.18, G:0.15, T:0.52
Consensus pattern (7 bp):
TGCATTT
Found at i:4105193 original size:51 final size:51
Alignment explanation
Indices: 4105119--4105813 Score: 784
Period size: 51 Copynumber: 13.3 Consensus size: 51
4105109 TACTCTCTGA
* * * * *
4105119 AGAAATAGGGAGC-AGACACGTTTGAAGATTTTCAAGTTCTATACTCCCTAA
1 AGAAAGAGGGAGCGA-ACCCGTTTGAAGATGTTCGAGTTCTATACTCCCTAG
* * * *
4105170 AGAAATAGAGAGCGAACCTGTTTGAAGATGTTCGAGTTCCATACTCCCTAG
1 AGAAAGAGGGAGCGAACCCGTTTGAAGATGTTCGAGTTCTATACTCCCTAG
* *
4105221 AGAAAGAGGGAGCGAACTCGTTTGAAGATGTTCGAGTTCCATACTCCCTAG
1 AGAAAGAGGGAGCGAACCCGTTTGAAGATGTTCGAGTTCTATACTCCCTAG
* * *
4105272 AGAAAGAGGGAGCGAACCCGTTTGAAGAAGATATTTGAGTTCTATTCTCCCT-G
1 AGAAAGAGGGAGCGAACCCGTTT---GAAGATGTTCGAGTTCTATACTCCCTAG
* * *
4105325 AAGAAAGAGTGAGCGAACCCGTTTAAAGATGTTCGAGTTCCATACTCCCTAG
1 -AGAAAGAGGGAGCGAACCCGTTTGAAGATGTTCGAGTTCTATACTCCCTAG
* * ** * *
4105377 ATAAAGAGGGAACGAACCCGTAAGAAGAAGATGTTTGATTTCTATACTCCCTAG
1 AGAAAGAGGGAGCGAACCCGT---TTGAAGATGTTCGAGTTCTATACTCCCTAG
* * *
4105431 AGAAAGAGGGAGCGAACCCGTTTGCAGAAGATTATTCGAGTTCTATACTTCCTGAA
1 AGAAAGAGGGAGCGAACCCGTTT---GAAGA-TGTTCGAGTTCTATACTCCCT-AG
4105487 AGAAAGAGGGAGCGAACCCGTTTGAAGATGTTCGAGTTCTATACTCCCTAG
1 AGAAAGAGGGAGCGAACCCGTTTGAAGATGTTCGAGTTCTATACTCCCTAG
* *
4105538 AGAAAGAGGGAGCGAACCCGTTTAAAGATGTTCGAGTTCCATACTCCCTAG
1 AGAAAGAGGGAGCGAACCCGTTTGAAGATGTTCGAGTTCTATACTCCCTAG
* * * ** *
4105589 ATAAAGAGGGAACGAACCCATAAGAAGAAGATGTACGAGTTCTATACTCCCTAG
1 AGAAAGAGGGAGCGAACCCGT---TTGAAGATGTTCGAGTTCTATACTCCCTAG
* *
4105643 AGAAAAAGGGAGAGAACCCGTTTGAAGATGTTCGAGTTCTATACTCCCTAG
1 AGAAAGAGGGAGCGAACCCGTTTGAAGATGTTCGAGTTCTATACTCCCTAG
* * * * *
4105694 AGAAAGAGGGAGCGAAACAGTTTGAAGAAGATATCCGAGTTTTATACT-CCTGAA
1 AGAAAGAGGGAGCGAACCCGTTTGAAGATG-T-T-CGAGTTCTATACTCCCT-AG
*
4105748 AGAAAGAGGGAGCGAACCCGTTTGAAGAGATGTTCAAGTTCTATACTCCCTAG
1 AGAAAGAGGGAGCGAACCCGTTTG-A-AGATGTTCGAGTTCTATACTCCCTAG
*
4105801 AGAGAGAGGGAGC
1 AGAAAGAGGGAGC
4105814 AGACACGATT
Statistics
Matches: 545, Mismatches: 75, Indels: 46
0.82 0.11 0.07
Matches are distributed among these distances:
51 270 0.50
52 22 0.04
53 34 0.06
54 172 0.32
55 19 0.03
56 28 0.05
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (51 bp):
AGAAAGAGGGAGCGAACCCGTTTGAAGATGTTCGAGTTCTATACTCCCTAG
Found at i:4105354 original size:105 final size:105
Alignment explanation
Indices: 4105119--4105813 Score: 832
Period size: 105 Copynumber: 6.6 Consensus size: 105
4105109 TACTCTCTGA
* * * * * * * *
4105119 AGAAATAGGGAGC-AGACACGTTTGAAGATTTTCAAGTTCTATACTCCCTAAAGAAATAGAGAGC
1 AGAAAGAGGGAGCGA-ACCCGTTTAAAGATGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGC
* *
4105183 GAACCTGTTT---GAAGATGTTCGAGTTCCATACTCCCTAG
65 GAACCCGTTTGAAGAAGATGTTCGAGTTCTATACTCCCTAG
* * *
4105221 AGAAAGAGGGAGCGAACTCGTTTGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCG
1 AGAAAGAGGGAGCGAACCCGTTTAAAGATGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCG
* * *
4105286 AACCCGTTTGAAGAAGATATTTGAGTTCTATTCTCCCT-G
66 AACCCGTTTGAAGAAGATGTTCGAGTTCTATACTCCCTAG
* * * *
4105325 AAGAAAGAGTGAGCGAACCCGTTTAAAGATGTTCGAGTTCCATACTCCCTAGATAAAGAGGGAAC
1 -AGAAAGAGGGAGCGAACCCGTTTAAAGATGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGC
** * *
4105390 GAACCCGTAAGAAGAAGATGTTTGATTTCTATACTCCCTAG
65 GAACCCGTTTGAAGAAGATGTTCGAGTTCTATACTCCCTAG
* * *
4105431 AGAAAGAGGGAGCGAACCCGTTTGCAGAAGATTATTCGAGTTCTATACTTCCTGAAAGAAAGAGG
1 AGAAAGAGGGAGCGAACCCGTTT--A-AAGA-TGTTCGAGTTCTATACTCCCT-AGAGAAAGAGG
4105496 GAGCGAACCCGTTT---GAAGATGTTCGAGTTCTATACTCCCTAG
61 GAGCGAACCCGTTTGAAGAAGATGTTCGAGTTCTATACTCCCTAG
* * *
4105538 AGAAAGAGGGAGCGAACCCGTTTAAAGATGTTCGAGTTCCATACTCCCTAGATAAAGAGGGAACG
1 AGAAAGAGGGAGCGAACCCGTTTAAAGATGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCG
* ** *
4105603 AACCCATAAGAAGAAGATGTACGAGTTCTATACTCCCTAG
66 AACCCGTTTGAAGAAGATGTTCGAGTTCTATACTCCCTAG
* * *
4105643 AGAAAAAGGGAGAGAACCCGTTTGAAGATGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCG
1 AGAAAGAGGGAGCGAACCCGTTTAAAGATGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCG
* * * * * *
4105708 AAACAGTTTGAAGAAGATATCCGAGTTTTATACT-CCTGAA
66 AACCCGTTTGAAGAAGATGTTCGAGTTCTATACTCCCT-AG
* *
4105748 AGAAAGAGGGAGCGAACCCGTTTGAAGAGATGTTCAAGTTCTATACTCCCTAGAGAGAGAGGGAG
1 AGAAAGAGGGAGCGAACCCGTTT-AA-AGATGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAG
4105813 C
64 C
4105814 AGACACGATT
Statistics
Matches: 512, Mismatches: 64, Indels: 29
0.85 0.11 0.05
Matches are distributed among these distances:
102 82 0.16
103 19 0.04
104 8 0.02
105 272 0.53
106 2 0.00
107 87 0.17
108 4 0.01
109 18 0.04
110 20 0.04
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (105 bp):
AGAAAGAGGGAGCGAACCCGTTTAAAGATGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCG
AACCCGTTTGAAGAAGATGTTCGAGTTCTATACTCCCTAG
Found at i:4105743 original size:317 final size:315
Alignment explanation
Indices: 4105142--4105813 Score: 947
Period size: 317 Copynumber: 2.1 Consensus size: 315
4105132 AGACACGTTT
* * *
4105142 GAAGATTTTCAAGTTCTATACTCCCTAAAGAAATAGAGAGCGAACCTGTTTGAAGATGTTCGAGT
1 GAAGATTTTCAAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTCGAGT
* *
4105207 TCCATACTCCCTAGAGAAAGAGGGAGCGAACTCGTTTGAAGATGTTCGAGTTCCATACTCCCTAG
66 TCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTAAAGATGTTCGAGTTCCATACTCCCTAG
* * ** ** * * *
4105272 AGAAAGAGGGAGCGAACCCGTTTGAAGAAGATATTTGAGTTCTATTCTCCCTGAAGAAAGAGTGA
131 AGAAAGAGGGAACGAACCCATAAGAAGAAGATATACGAGTTCTATACTCCCTGAAGAAAAAGGGA
* * * *
4105337 GCGAACCCGTTTAAAGATGTTCGAGTTCCATACTCCCTAGATAAAGAGGGAACGAACCCGTAAGA
196 GAGAACCCGTTTAAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAACGAAACAGTAAGA
* ** * *
4105402 AGAAGATGTTTGATTTCTATACTCCCT-AGAGAAAGAGGGAGCGAACCCGTTTGCA
261 AGAAGATATCCGATTTCTATACT-CCTGAAAGAAAGAGGGAGCGAACCCGTTTGAA
* *
4105457 GAAGATTATTCGAGTTCTATACTTCCTGAAAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTCGA
1 GAAGATT-TTCAAGTTCTATACTCCCT-AAAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTCGA
*
4105522 GTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTAAAGATGTTCGAGTTCCATACTCCCT
64 GTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTAAAGATGTTCGAGTTCCATACTCCCT
* *
4105587 AGATAAAGAGGGAACGAACCCATAAGAAGAAGATGTACGAGTTCTATACTCCCT-AGAGAAAAAG
129 AGAGAAAGAGGGAACGAACCCATAAGAAGAAGATATACGAGTTCTATACTCCCTGA-AGAAAAAG
* * * *
4105651 GGAGAGAACCCGTTTGAAGATGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAAACAGTT
193 GGAGAGAACCCGTTTAAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAACGAAACAGTA
*
4105716 TGAAGAAGATATCCGAGTTT-TATACTCCTGAAAGAAAGAGGGAGCGAACCCGTTTGAA
258 AGAAGAAGATATCCGA-TTTCTATACTCCTGAAAGAAAGAGGGAGCGAACCCGTTTGAA
* * *
4105774 G-AGATGTTCAAGTTCTATACTCCCTAGAGAGAGAGGGAGC
1 GAAGATTTTCAAGTTCTATACTCCCTAAAGAAAGAGGGAGC
4105814 AGACACGATT
Statistics
Matches: 314, Mismatches: 38, Indels: 11
0.87 0.10 0.03
Matches are distributed among these distances:
314 13 0.04
315 24 0.08
316 25 0.08
317 249 0.79
318 3 0.01
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.23
Consensus pattern (315 bp):
GAAGATTTTCAAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTCGAGT
TCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTAAAGATGTTCGAGTTCCATACTCCCTAG
AGAAAGAGGGAACGAACCCATAAGAAGAAGATATACGAGTTCTATACTCCCTGAAGAAAAAGGGA
GAGAACCCGTTTAAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAACGAAACAGTAAGA
AGAAGATATCCGATTTCTATACTCCTGAAAGAAAGAGGGAGCGAACCCGTTTGAA
Found at i:4105886 original size:55 final size:55
Alignment explanation
Indices: 4105807--4106149 Score: 410
Period size: 55 Copynumber: 6.3 Consensus size: 55
4105797 CTAGAGAGAG
*
4105807 AGGGAGCAGACACGATTGCAGAAGATTATTCGAATCTTATACTCTCTGAAGAAAT
1 AGGGAGCAGACACGATTGCAGAAGATTATTCGAGTCTTATACTCTCTGAAGAAAT
** * ** *
4105862 AGAAAGCATACACGATTGTTGAAGATTGCTT-GAGTCTTATACTCTCTGAAGAAAT
1 AGGGAGCAGACACGATTGCAGAAGATT-ATTCGAGTCTTATACTCTCTGAAGAAAT
* *
4105917 AGGGAGCAGACACGATTGCAGAAGATTATTTGAGTCTTATACTTTCTGAAGAAAT
1 AGGGAGCAGACACGATTGCAGAAGATTATTCGAGTCTTATACTCTCTGAAGAAAT
* ** *
4105972 AGAGAGCAGACACGATTGTTGAAGATTATTCGAGTC-T-T-CTCTCTGAAAAAAAT
1 AGGGAGCAGACACGATTGCAGAAGATTATTCGAGTCTTATACTCTCTG-AAGAAAT
*
4106025 AGGGAGCAGACACGATTGCAGAAGATTATTCGAGTCTTATATTCTCTGAAGAAAT
1 AGGGAGCAGACACGATTGCAGAAGATTATTCGAGTCTTATACTCTCTGAAGAAAT
* ** * * *
4106080 AGGGAGCAGTCAC-ATTTGTTGAAGATTTGTTCAAGTCCTATACTCTCTGAATG-AAT
1 AGGGAGCAGACACGA-TTGCAGAAGA-TTATTCGAGTCTTATACTCTCTGAA-GAAAT
*
4106136 AGGGAGCGGACACG
1 AGGGAGCAGACACG
4106150 TTTGTTTGAA
Statistics
Matches: 244, Mismatches: 34, Indels: 18
0.82 0.11 0.06
Matches are distributed among these distances:
52 6 0.02
53 40 0.16
54 5 0.02
55 149 0.61
56 43 0.18
57 1 0.00
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (55 bp):
AGGGAGCAGACACGATTGCAGAAGATTATTCGAGTCTTATACTCTCTGAAGAAAT
Found at i:4105921 original size:110 final size:109
Alignment explanation
Indices: 4105664--4106149 Score: 482
Period size: 108 Copynumber: 4.5 Consensus size: 109
4105654 GAGAACCCGT
* * * * *
4105664 TTGAAGA-TGTTCGAGTTCTATACTCCCT-AGAGAAAGAGGGAGC-GAAACAGTTTGAAGAAGA-
1 TTGAAGATTGTTCGAG-TCTATACTCTCTGA-AGAAATAGGGAGCAGACAC-GATTGCAGAAGAT
* * * * *
4105725 TATCCGAGTTTTATACTC-CTGAAAGAAAGAGGGAGCGA-ACCCG--T-
63 TATTCGAGTCTTATACTCTCTG-AAGAAATAGAGAGC-ATACACGATTG
* * * * *
4105769 TTGAAGAGATGTTCAAGTTCTATACTCCCT-AGAGAGAGAGGGAGCAGACACGATTGCAGAAGAT
1 TTGAAGA-TTGTTCGAG-TCTATACTCTCTGA-AGAAATAGGGAGCAGACACGATTGCAGAAGAT
* *
4105833 TATTCGAATCTTATACTCTCTGAAGAAATAGAAAGCATACACGATTG
63 TATTCGAGTCTTATACTCTCTGAAGAAATAGAGAGCATACACGATTG
4105880 TTGAAGATTGCTT-GAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGCAGAAGATT
1 TTGAAGATTG-TTCGAGTC-TATACTCTCTGAAGAAATAGGGAGCAGACACGATTGCAGAAGATT
* * *
4105944 ATTTGAGTCTTATACTTTCTGAAGAAATAGAGAGCAGACACGATTG
64 ATTCGAGTCTTATACTCTCTGAAGAAATAGAGAGCATACACGATTG
* *
4105990 TTGAAGATTATTCGAGTCT-T-CTCTCTGAAAAAAATAGGGAGCAGACACGATTGCAGAAGATTA
1 TTGAAGATTGTTCGAGTCTATACTCTCTG-AAGAAATAGGGAGCAGACACGATTGCAGAAGATTA
* *
4106053 TTCGAGTCTTATATTCTCTGAAGAAATAGGGAGCAGT-CAC-ATTTG
65 TTCGAGTCTTATACTCTCTGAAGAAATAGAGAGCA-TACACGA-TTG
* *
4106098 TTGAAGATTTGTTCAAGTCCTATACTCTCTGAATG-AATAGGGAGCGGACACG
1 TTGAAGA-TTGTTCGAGT-CTATACTCTCTGAA-GAAATAGGGAGCAGACACG
4106150 TTTGTTTGAA
Statistics
Matches: 327, Mismatches: 33, Indels: 36
0.83 0.08 0.09
Matches are distributed among these distances:
105 7 0.02
107 53 0.16
108 113 0.35
109 16 0.05
110 102 0.31
111 29 0.09
112 7 0.02
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (109 bp):
TTGAAGATTGTTCGAGTCTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGCAGAAGATTAT
TCGAGTCTTATACTCTCTGAAGAAATAGAGAGCATACACGATTG
Found at i:4106073 original size:108 final size:110
Alignment explanation
Indices: 4105807--4106149 Score: 457
Period size: 110 Copynumber: 3.1 Consensus size: 110
4105797 CTAGAGAGAG
* * * *
4105807 AGGGAGCAGACACGATTGCAGAAGATTATTCGAATCTTATACTCTCTGAAGAAATAGAAAGCATA
1 AGGGAGCAGACACGATTGCAGAAGATTATTCGAGTCTTATATTCTCTGAAGAAATAGAGAGCAGA
* *
4105872 CACGATTGTTGAAGATTGCTTGAGTCTTATACTCTCTGAAGAAAT
66 CACGATTGTTGAAGATTGATTGAGTCTTATACTCTCTGAAAAAAT
*
4105917 AGGGAGCAGACACGATTGCAGAAGATTATTTGAGTCTTATACTT-TCTGAAGAAATAGAGAGCAG
1 AGGGAGCAGACACGATTGCAGAAGATTATTCGAGTCTTATA-TTCTCTGAAGAAATAGAGAGCAG
4105981 ACACGATTGTTGAAGATT-ATTCGAGTC-T-T-CTCTCTGAAAAAAAT
65 ACACGATTGTTGAAGATTGATT-GAGTCTTATACTCTCTG-AAAAAAT
* *
4106025 AGGGAGCAGACACGATTGCAGAAGATTATTCGAGTCTTATATTCTCTGAAGAAATAGGGAGCAGT
1 AGGGAGCAGACACGATTGCAGAAGATTATTCGAGTCTTATATTCTCTGAAGAAATAGAGAGCAGA
* * **
4106090 CAC-ATTTGTTGAAGATTTG-TTCAAGTCCTATACTCTCTGAATGAAT
66 CACGA-TTGTTGAAGA-TTGATT-GAGTCTTATACTCTCTGAAAAAAT
*
4106136 AGGGAGCGGACACG
1 AGGGAGCAGACACG
4106150 TTTGTTTGAA
Statistics
Matches: 209, Mismatches: 14, Indels: 19
0.86 0.06 0.08
Matches are distributed among these distances:
107 10 0.05
108 79 0.38
109 12 0.06
110 81 0.39
111 20 0.10
112 7 0.03
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (110 bp):
AGGGAGCAGACACGATTGCAGAAGATTATTCGAGTCTTATATTCTCTGAAGAAATAGAGAGCAGA
CACGATTGTTGAAGATTGATTGAGTCTTATACTCTCTGAAAAAAT
Found at i:4106450 original size:3 final size:3
Alignment explanation
Indices: 4106432--4106476 Score: 51
Period size: 3 Copynumber: 15.7 Consensus size: 3
4106422 TAAAAATATA
*
4106432 TAT TA- TAT TGAT TAT TAT TAT TAT TA- TAT TAA TA- TAT TAT TAT
1 TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
4106475 TA
1 TA
4106477 ATAATACTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
2 6 0.16
3 28 0.76
4 3 0.08
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:4106471 original size:19 final size:21
Alignment explanation
Indices: 4106432--4106476 Score: 67
Period size: 19 Copynumber: 2.2 Consensus size: 21
4106422 TAAAAATATA
*
4106432 TATTATATTGATTATTATTAT
1 TATTATATTGAATATTATTAT
4106453 TATTATATT-AATA-TATTAT
1 TATTATATTGAATATTATTAT
4106472 TATTA
1 TATTA
4106477 ATAATACTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 11 0.48
20 3 0.13
21 9 0.39
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (21 bp):
TATTATATTGAATATTATTAT
Found at i:4111410 original size:201 final size:201
Alignment explanation
Indices: 4111047--4111524 Score: 787
Period size: 201 Copynumber: 2.4 Consensus size: 201
4111037 GTGAAATTTA
** *
4111047 AAAAAGTATTGACACAAACTTAAAAAGTGTCGATACATTATGTAGATCTATTCTCTCATAAAACT
1 AAAAAGTATCAACACAAACTTAAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACT
* * *
4111112 GGTATATTTATACCGGTTATATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTT
66 GGTATATTTATACCAGTTACATTGAAAAATTAACTATTACATTATAATTATGGGTTTCGATGTTT
* * * *
4111177 TTGTGATTGATACTTTTTATAAATGCATCGACACTTTATGCATGCACCTAGTTTGGGCATTTATT
131 TTGGGATCGATACTTTTTATAAATACATCGACACTTTATGCATGCACCTAGTTTGGGCATTCATT
4111242 CTGGAC
196 CTGGAC
* * * *
4111248 AAAAATTATCTACACAAACTTAAAAAGTGTCGATACATTATGTACACCTATTCTCTAATAAAACT
1 AAAAAGTATCAACACAAACTTAAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACT
4111313 GGTATATTTATACCAGTTACATTGAAAAATTAACTATTACATTATAATTATGGGTTTCGATGTTT
66 GGTATATTTATACCAGTTACATTGAAAAATTAACTATTACATTATAATTATGGGTTTCGATGTTT
* *
4111378 TTGGGATCGATACTTTTTATAAATATATCGACACTTTATGCGTGCACCTAGTTTGGGCATTCATT
131 TTGGGATCGATACTTTTTATAAATACATCGACACTTTATGCATGCACCTAGTTTGGGCATTCATT
4111443 CTGGAC
196 CTGGAC
*
4111449 AAAAAGTATCAACACAAACTTAAAAAGTGTCGATTCATTATGTAGACCTATTCTCTCATAAAACT
1 AAAAAGTATCAACACAAACTTAAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACT
*
4111514 -GTATAATTATA
66 GGTATATTTATA
4111525 ATTATGGGTT
Statistics
Matches: 256, Mismatches: 21, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
200 10 0.04
201 246 0.96
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (201 bp):
AAAAAGTATCAACACAAACTTAAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACT
GGTATATTTATACCAGTTACATTGAAAAATTAACTATTACATTATAATTATGGGTTTCGATGTTT
TTGGGATCGATACTTTTTATAAATACATCGACACTTTATGCATGCACCTAGTTTGGGCATTCATT
CTGGAC
Found at i:4111627 original size:166 final size:167
Alignment explanation
Indices: 4111353--4111691 Score: 662
Period size: 166 Copynumber: 2.0 Consensus size: 167
4111343 TAACTATTAC
4111353 ATTATAATTATGGGTTTCGATGTTTTTGGGATCGATACTTTTTATAAATATATCGACACTTTATG
1 ATTATAATTATGGGTTTCGATGTTTTTGGGATCGATACTTTTTATAAATATATCGACACTTTATG
4111418 CGTGCACCTAGTTTGGGCATTCATTCTGGACAAAAAGTATCAACACAAACTTAAAAAGTGTCGAT
66 CGTGCACCTAGTTTGGGCATTCATTCTGGACAAAAAGTATCAACACAAACTTAAAAAGTGTCGAT
4111483 TCATTATGTAGACCTATTCTCTCATAAAACT-GTATA
131 TCATTATGTAGACCTATTCTCTCATAAAACTGGTATA
4111519 ATTATAATTATGGGTTTCGATGTTTTTGGGATCGATACTTTTTATAAATATATCGACACTTTATG
1 ATTATAATTATGGGTTTCGATGTTTTTGGGATCGATACTTTTTATAAATATATCGACACTTTATG
4111584 CGTGCACCTAGTTTGGGCATTCATTCTGGACAAAAAGTATCAACACAAACTTAAAAAGTGTCGAT
66 CGTGCACCTAGTTTGGGCATTCATTCTGGACAAAAAGTATCAACACAAACTTAAAAAGTGTCGAT
4111649 TCATTATGTAGACCTATTCTCTCATAAAACTGGTATA
131 TCATTATGTAGACCTATTCTCTCATAAAACTGGTATA
*
4111686 TTTATA
1 ATTATA
4111692 CTGATTACAT
Statistics
Matches: 171, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
166 161 0.94
167 10 0.06
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.37
Consensus pattern (167 bp):
ATTATAATTATGGGTTTCGATGTTTTTGGGATCGATACTTTTTATAAATATATCGACACTTTATG
CGTGCACCTAGTTTGGGCATTCATTCTGGACAAAAAGTATCAACACAAACTTAAAAAGTGTCGAT
TCATTATGTAGACCTATTCTCTCATAAAACTGGTATA
Found at i:4112148 original size:201 final size:200
Alignment explanation
Indices: 4111519--4112580 Score: 1725
Period size: 201 Copynumber: 5.3 Consensus size: 200
4111509 AAACTGTATA
*
4111519 ATTATAATTATGGGTTTCGATGTTTTTGGGATCGATACTTTTTATAAATATATCGACACTTTATG
1 ATTATAATTATGGGTTTCGATGTTTTTGGGATCGATAC-TTTTATAAATGTATCGACACTTTATG
*
4111584 CGTGCACCTAGTTTGGGCATTCATTCTGGACAAAAAGTATCAACACAAACTTAAAAAGTGTCGAT
65 CGTGCACCTAGTTTGGGCATTCATTCTGGACAAAAAGTATCGACACAAACTTAAAAAGTGTCGAT
* * * * *
4111649 TCATTATGTAGACCTATTCTCTCATAAAACTGGTATATTTATACTGATTACATTGAAAAATTACC
130 ACATTATGTAGACCTATTCTCTCTTAAAACCGGTATATTTATACCGGTTACATTGAAAAATTACC
4111714 TATTAC
195 TATTAC
*
4111720 TTTATAATTATGGGTTTCGATGTTTTTGGGATCGATACTTTTATAAATGTATCGACACTTTATGC
1 ATTATAATTATGGGTTTCGATGTTTTTGGGATCGATACTTTTATAAATGTATCGACACTTTATGC
*
4111785 GTGCACCTAGTTTTGGCATTCATTCTGGACAAAAAGTATCGACACAAACTTAAAAA-TGTCGATA
66 GTGCACCTAGTTTGGGCATTCATTCTGGACAAAAAGTATCGACACAAACTTAAAAAGTGTCGATA
* * * * *
4111849 CATTATATCGACATATTCTCTCTTAAAATCGGTATATTTATACCGGTTACATTGAAAAATTATCT
131 CATTATGTAGACCTATTCTCTCTTAAAACCGGTATATTTATACCGGTTACATTGAAAAATTACCT
4111914 ATTAC
196 ATTAC
* * * **
4111919 ATTATAATTATGAGTTTTGATATTTTTGGGATCGATACTTTTCATAAATGTGGCGACACTTTATG
1 ATTATAATTATGGGTTTCGATGTTTTTGGGATCGATACTTTT-ATAAATGTATCGACACTTTATG
*
4111984 CGTGCACCTAGTTTAGGCATTCATTCTGGACAAAAAGTATCGACACAAACTTAAAAAGTGTCGAT
65 CGTGCACCTAGTTTGGGCATTCATTCTGGACAAAAAGTATCGACACAAACTTAAAAAGTGTCGAT
*
4112049 ACATTATGTAGACCTATTCTCT-TATAAAACCGATATATTTATACCGGTTACATTGAAAAATTAC
130 ACATTATGTAGACCTATTCTCTCT-TAAAACCGGTATATTTATACCGGTTACATTGAAAAATTAC
4112113 CTATTAC
194 CTATTAC
* *
4112120 ATTATAATTATGGGTTTCGATGTTTTTGGGATCGATATTTTTTATAAATGTATCAACACTTTATG
1 ATTATAATTATGGGTTTCGATGTTTTTGGGATCGATA-CTTTTATAAATGTATCGACACTTTATG
* *
4112185 CGTGCACCTAGTTTGGCCATTCATTCTGGACAAAAATTATCGACACAAACTTAAAAAGTGTCGAT
65 CGTGCACCTAGTTTGGGCATTCATTCTGGACAAAAAGTATCGACACAAACTTAAAAAGTGTCGAT
* * *
4112250 ACATTATGTAGACTTATTCTCTCTTAAAACCGGTATATTTATACCGGTTACATTGAAAATTTATC
130 ACATTATGTAGACCTATTCTCTCTTAAAACCGGTATATTTATACCGGTTACATTGAAAAATTACC
4112315 TATTAC
195 TATTAC
* *
4112321 ATTATAATTATGGGTTTCGATAATGTTT-GGATCGATACTTTTCATAAATGTATCGACACTTTAT
1 ATTATAATTATGGGTTTCGAT-GTTTTTGGGATCGATACTTTT-ATAAATGTATCGACACTTTAT
*
4112385 GTGTGCACCTAGTTTGGGCATTCATTCTGGACAAAAAGTATCGACACAAACTTAAAAAGTGTCGA
64 GCGTGCACCTAGTTTGGGCATTCATTCTGGACAAAAAGTATCGACACAAACTTAAAAAGTGTCGA
* * *
4112450 TACATTATGTAGACCTGTTCTCTCTTAAAATCGATATATTTATACCGGTTACATTGAAAAATTAC
129 TACATTATGTAGACCTATTCTCTCTTAAAACCGGTATATTTATACCGGTTACATTGAAAAATTAC
4112515 CTATTAC
194 CTATTAC
*
4112522 ATTATAATTATGGGTTTTGATGTTTTTGGGATCGATACGTTTTATAAATGTATCGACAC
1 ATTATAATTATGGGTTTCGATGTTTTTGGGATCGATAC-TTTTATAAATGTATCGACAC
4112581 ATCTGTTTAC
Statistics
Matches: 795, Mismatches: 57, Indels: 18
0.91 0.07 0.02
Matches are distributed among these distances:
199 106 0.13
200 165 0.21
201 511 0.64
202 13 0.02
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (200 bp):
ATTATAATTATGGGTTTCGATGTTTTTGGGATCGATACTTTTATAAATGTATCGACACTTTATGC
GTGCACCTAGTTTGGGCATTCATTCTGGACAAAAAGTATCGACACAAACTTAAAAAGTGTCGATA
CATTATGTAGACCTATTCTCTCTTAAAACCGGTATATTTATACCGGTTACATTGAAAAATTACCT
ATTAC
Found at i:4112964 original size:19 final size:19
Alignment explanation
Indices: 4112940--4113007 Score: 109
Period size: 19 Copynumber: 3.6 Consensus size: 19
4112930 TTCTCATCTC
4112940 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
4112959 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
* **
4112978 ATATAAAATTATAAATTTT
1 ATACAAAATTATAAATCGT
4112997 ATACAAAATTA
1 ATACAAAATTA
4113008 ACCCTACATT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 45 1.00
ACGTcount: A:0.54, C:0.07, G:0.03, T:0.35
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:4114588 original size:18 final size:18
Alignment explanation
Indices: 4114561--4114599 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
4114551 TCCTCTTCAT
*
4114561 TTCCTTCATCTTTTCTTC
1 TTCCTCCATCTTTTCTTC
4114579 TTCCTCCATCTTTTCTTC
1 TTCCTCCATCTTTTCTTC
4114597 TTC
1 TTC
4114600 ATATGTTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.05, C:0.36, G:0.00, T:0.59
Consensus pattern (18 bp):
TTCCTCCATCTTTTCTTC
Found at i:4115053 original size:9 final size:9
Alignment explanation
Indices: 4115033--4115073 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
4115023 CTTCTTCCTT
*
4115033 CTCCTCTGC
1 CTCCTCTAC
*
4115042 CTCCACTAC
1 CTCCTCTAC
*
4115051 CTCCTCTGC
1 CTCCTCTAC
4115060 CTCCTCTAC
1 CTCCTCTAC
4115069 CTCCT
1 CTCCT
4115074 TGCTAATAAC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.07, C:0.56, G:0.05, T:0.32
Consensus pattern (9 bp):
CTCCTCTAC
Found at i:4115056 original size:18 final size:18
Alignment explanation
Indices: 4115033--4115073 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
4115023 CTTCTTCCTT
4115033 CTCCTCTGCCTCCACTAC
1 CTCCTCTGCCTCCACTAC
*
4115051 CTCCTCTGCCTCCTCTAC
1 CTCCTCTGCCTCCACTAC
4115069 CTCCT
1 CTCCT
4115074 TGCTAATAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.07, C:0.56, G:0.05, T:0.32
Consensus pattern (18 bp):
CTCCTCTGCCTCCACTAC
Found at i:4115334 original size:22 final size:23
Alignment explanation
Indices: 4115306--4115361 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
4115296 AACCTGCATT
*
4115306 TATAATAAAAT-TTATCATTTTA
1 TATAATAAAATACTATCATTTTA
*
4115328 TATAATAACTATACTATCATTTTA
1 TATAATAA-AATACTATCATTTTA
*
4115352 TATAAAAAAA
1 TATAATAAAA
4115362 ACATTCATCA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
22 8 0.29
23 3 0.11
24 17 0.61
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (23 bp):
TATAATAAAATACTATCATTTTA
Found at i:4117825 original size:19 final size:19
Alignment explanation
Indices: 4117798--4117843 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
4117788 TGTGGATTCT
*
4117798 ATTCCCATGGGAATCTCAC
1 ATTCCCATGAGAATCTCAC
*
4117817 ATTCTCATGAGAATCTCAC
1 ATTCCCATGAGAATCTCAC
4117836 ATTTCCCA
1 A-TTCCCA
4117844 ACCAAACACA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 18 0.78
20 5 0.22
ACGTcount: A:0.28, C:0.30, G:0.11, T:0.30
Consensus pattern (19 bp):
ATTCCCATGAGAATCTCAC
Found at i:4118263 original size:20 final size:20
Alignment explanation
Indices: 4118217--4118263 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
4118207 TCTGATAGCG
4118217 CTTTACCAGTTTTGTCATTT
1 CTTTACCAGTTTTGTCATTT
** *
4118237 CGATACCGGTTTTGTCATATT
1 CTTTACCAGTTTTGTCAT-TT
4118258 -TTTACC
1 CTTTACC
4118264 TGTTATATCG
Statistics
Matches: 21, Mismatches: 5, Indels: 2
0.75 0.18 0.07
Matches are distributed among these distances:
20 19 0.90
21 2 0.10
ACGTcount: A:0.17, C:0.21, G:0.13, T:0.49
Consensus pattern (20 bp):
CTTTACCAGTTTTGTCATTT
Found at i:4118299 original size:182 final size:182
Alignment explanation
Indices: 4117992--4118658 Score: 907
Period size: 182 Copynumber: 3.7 Consensus size: 182
4117982 TTATTACACG
* *
4117992 TACTTAT-TAAAGTATCGACACTTTCAATATATATCTG-GTAGCACTTTACCGATTTTGTCATTT
1 TACTTATATAAAGTATCGACACTTTC-A-ATATATCTGAGTAGCGCTTTACCGGTTTTGTCATTT
* * * *
4118055 CGAGACAGGTTTTATCATATTTTTACATTTTATATCGTTATGGATCGATACATTTTTATAAAGTA
64 CGAGACCGGTTTTGTCATATTTTTACCTGTTATATCGTTATGGATCGATACATTTTTATAAAGTA
4118120 TCGACACTTTATAGGCGCTATTACTGCTTCTCTTTTAAATTCCCAAAGTGTCGA
129 TCGACACTTTATAGGCGCTATTACTGCTTCTCTTTTAAATTCCCAAAGTGTCGA
* *
4118174 TACTTATATGAAAGTATTGACACTTTCAATATATCTGA-TAGCGCTTTACCAGTTTTGTCATTTC
1 TACTTATAT-AAAGTATCGACACTTTCAATATATCTGAGTAGCGCTTTACCGGTTTTGTCATTTC
* * *
4118238 GATACCGGTTTTGTCATATTTTTACCTGTTATATCGTTATAGATCAATACATTTTTATAAAGTAT
65 GAGACCGGTTTTGTCATATTTTTACCTGTTATATCGTTATGGATCGATACATTTTTATAAAGTAT
* * * * ** *
4118303 TGACACTTTATAGACGCTATTACTGTTTCTCTTTGAAATTCCCAATTTGTCAA
130 CGACACTTTATAGGCGCTATTACTGCTTCTCTTTTAAATTCCCAAAGTGTCGA
* *
4118356 TACTTATATTAAAGTATCGACGCTTTCAATATATC-CAGTAGCGCTTTACCGGTTTTGTCATTTC
1 TACTTATA-TAAAGTATCGACACTTTCAATATATCTGAGTAGCGCTTTACCGGTTTTGTCATTTC
* * *
4118420 GAGACCGATTTTGTTATATTTTTACCTGTTATATCGTTATGGATCGATATATTTTTATAAAGTAT
65 GAGACCGGTTTTGTCATATTTTTACCTGTTATATCGTTATGGATCGATACATTTTTATAAAGTAT
* *
4118485 CGACACTTTATAAGCGCTATTATTGCTTCTCTTTTAAATTCCCAAAGTGTCGA
130 CGACACTTTATAGGCGCTATTACTGCTTCTCTTTTAAATTCCCAAAGTGTCGA
* ** * *
4118538 TACTTATTTCAATCTAATCGATACTTTCAACATATCT-AGTAGCGCTTTACCGGTTTTGTCATAA
1 TACTTATAT-AAAGT-ATCGACACTTTCAATATATCTGAGTAGCGCTTTACCGGTTTTGTCAT--
* * * *
4118602 TT--AAACTGGTTTTGTCATATTTTTACCTGTTATATTGATATGGATCGATACATTTTT
62 TTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATCGTTATGGATCGATACATTTTT
4118659 TATTTGGATC
Statistics
Matches: 425, Mismatches: 50, Indels: 19
0.86 0.10 0.04
Matches are distributed among these distances:
181 2 0.00
182 312 0.73
183 93 0.22
184 16 0.04
185 2 0.00
ACGTcount: A:0.27, C:0.17, G:0.13, T:0.43
Consensus pattern (182 bp):
TACTTATATAAAGTATCGACACTTTCAATATATCTGAGTAGCGCTTTACCGGTTTTGTCATTTCG
AGACCGGTTTTGTCATATTTTTACCTGTTATATCGTTATGGATCGATACATTTTTATAAAGTATC
GACACTTTATAGGCGCTATTACTGCTTCTCTTTTAAATTCCCAAAGTGTCGA
Found at i:4119133 original size:42 final size:42
Alignment explanation
Indices: 4118976--4119380 Score: 461
Period size: 42 Copynumber: 9.8 Consensus size: 42
4118966 CAAAATACTA
* * *
4118976 TACTTTAGTGGCGTTTTTATA-AAAACGCCGCTAAAGA-ATCG
1 TACTTTAGTGGCGTTTTAATACCAAACGCCGCTATAGACA-CG
* * * *
4119017 TAATGTAGTGGCGTTTTTATA-CAAACGCCGCTATAAACTA-G
1 TACTTTAGTGGCGTTTTAATACCAAACGCCGCTATAGAC-ACG
* * *
4119058 TATTTTAGTGGCGTTTTTATA-CAAACGCTGCTATAGACACG
1 TACTTTAGTGGCGTTTTAATACCAAACGCCGCTATAGACACG
* * * *
4119099 TACTTTTGTGGCGTTTTAATACCAAACGACGCTATAGACTCA
1 TACTTTAGTGGCGTTTTAATACCAAACGCCGCTATAGACACG
** *
4119141 TACTTTAGTGGTATTTT--TACATAAACGCCGCTATAGACACG
1 TACTTTAGTGGCGTTTTAATAC-CAAACGCCGCTATAGACACG
* *
4119182 TATTTTTA-TGGCGTTTTAATACCAAACGCCGCTATAGACATG
1 TA-CTTTAGTGGCGTTTTAATACCAAACGCCGCTATAGACACG
* **
4119224 TACTTTTGTGGCGTTTTAATACCAAACGCCGCTATAGATTCG
1 TACTTTAGTGGCGTTTTAATACCAAACGCCGCTATAGACACG
*
4119266 TACTTTAGTGGCGTTTT--TACACAAACGCCGCTATAGACATG
1 TACTTTAGTGGCGTTTTAATAC-CAAACGCCGCTATAGACACG
* * *
4119307 TACTTTTGTGGCGTTTTAATAACAAACGCCGCTATAGACTCG
1 TACTTTAGTGGCGTTTTAATACCAAACGCCGCTATAGACACG
4119349 TACTTTAGTGGCGTTTTAATACCAAACGCCGC
1 TACTTTAGTGGCGTTTTAATACCAAACGCCGC
4119381 AATTGTCATA
Statistics
Matches: 309, Mismatches: 43, Indels: 23
0.82 0.11 0.06
Matches are distributed among these distances:
40 7 0.02
41 147 0.48
42 149 0.48
43 6 0.02
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.34
Consensus pattern (42 bp):
TACTTTAGTGGCGTTTTAATACCAAACGCCGCTATAGACACG
Found at i:4119167 original size:83 final size:83
Alignment explanation
Indices: 4118974--4119406 Score: 463
Period size: 83 Copynumber: 5.2 Consensus size: 83
4118964 TGCAAAATAC
* * * * * *
4118974 TATACTTTAGTGGCGTTTTTATAAAAACGCCGCTAAAGA-ATCGTAATGTAGTGGCGTTTTTATA
1 TATACTTTAGTGGCGTTTTTACACAAACGCCGCTATAGACA-CGTACTTTAGTGGCGTTTTAATA
*
4119038 -CAAACGCCGCTATAAAC-
65 CCAAACGCCGCTATAGACA
* * * *
4119055 TAGTATTTTAGTGGCGTTTTTATACAAACGCTGCTATAGACACGTACTTTTGTGGCGTTTTAATA
1 TA-TACTTTAGTGGCGTTTTTACACAAACGCCGCTATAGACACGTACTTTAGTGGCGTTTTAATA
*
4119120 CCAAACGACGCTATAGAC-
65 CCAAACGCCGCTATAGACA
** * *
4119138 TCATACTTTAGTGGTATTTTTACATAAACGCCGCTATAGACACGTATTTTTA-TGGCGTTTTAAT
1 T-ATACTTTAGTGGCGTTTTTACACAAACGCCGCTATAGACACGTA-CTTTAGTGGCGTTTTAAT
4119202 ACCAAACGCCGCTATAGACA
64 ACCAAACGCCGCTATAGACA
* * **
4119222 TGTACTTTTGTGGCGTTTTAATAC-CAAACGCCGCTATAGATTCGTACTTTAGTGGCGTTTT--T
1 TATACTTTAGTGGCGTTTT--TACACAAACGCCGCTATAGACACGTACTTTAGTGGCGTTTTAAT
4119284 ACACAAACGCCGCTATAGACA
64 AC-CAAACGCCGCTATAGACA
* * *
4119305 TGTACTTTTGTGGCGTTTTAATA-ACAAACGCCGCTATAGACTCGTACTTTAGTGGCGTTTTAAT
1 TATACTTTAGTGGCGTTTT--TACACAAACGCCGCTATAGACACGTACTTTAGTGGCGTTTTAAT
* * *
4119369 ACCAAACGCCGCAATTGTCA
64 ACCAAACGCCGCTATAGACA
*
4119389 TATAAC-CTAGTGGCGTTT
1 TAT-ACTTTAGTGGCGTTT
4119407 ACGTAAAAAA
Statistics
Matches: 304, Mismatches: 34, Indels: 25
0.84 0.09 0.07
Matches are distributed among these distances:
81 2 0.01
82 55 0.18
83 179 0.59
84 60 0.20
85 8 0.03
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (83 bp):
TATACTTTAGTGGCGTTTTTACACAAACGCCGCTATAGACACGTACTTTAGTGGCGTTTTAATAC
CAAACGCCGCTATAGACA
Found at i:4119250 original size:125 final size:122
Alignment explanation
Indices: 4118976--4119380 Score: 535
Period size: 125 Copynumber: 3.3 Consensus size: 122
4118966 CAAAATACTA
* * * * * *
4118976 TACTTTAGTGGCGTTTTTATA-AAAACGCCGCTAAAGAATCGTAATGTAGTGGCGTTTTTATACA
1 TACTTTAGTGGCGTTTTAATACCAAACGCCGCTATAGAATCGTACTTTAGTGGCGTTTTTACACA
* * * *
4119040 AACGCCGCTATAAACTAGTATTTTAGTGGCGTTTTTATACAAACGCTGCTATAGACACG
66 AACGCCGCTATAGAC-AGTATTTTA-TGGCGTTTTAATACAAACGCCGCTATAGACATG
* * * * ** *
4119099 TACTTTTGTGGCGTTTTAATACCAAACGACGCTATAGACTCATACTTTAGTGGTATTTTTACATA
1 TACTTTAGTGGCGTTTTAATACCAAACGCCGCTATAGAATCGTACTTTAGTGGCGTTTTTACACA
4119164 AACGCCGCTATAGACACGTATTTTTATGGCGTTTTAATACCAAACGCCGCTATAGACATG
66 AACGCCGCTATAGACA-GTA-TTTTATGGCGTTTTAATA-CAAACGCCGCTATAGACATG
* *
4119224 TACTTTTGTGGCGTTTTAATACCAAACGCCGCTATAGATTCGTACTTTAGTGGCGTTTTTACACA
1 TACTTTAGTGGCGTTTTAATACCAAACGCCGCTATAGAATCGTACTTTAGTGGCGTTTTTACACA
*
4119289 AACGCCGCTATAGACATGTACTTTTGTGGCGTTTTAATAACAAACGCCGCTATAGAC-TCG
66 AACGCCGCTATAGACA-GTA-TTTTATGGCGTTTTAAT-ACAAACGCCGCTATAGACAT-G
4119349 TACTTTAGTGGCGTTTTAATACCAAACGCCGC
1 TACTTTAGTGGCGTTTTAATACCAAACGCCGC
4119381 AATTGTCATA
Statistics
Matches: 249, Mismatches: 27, Indels: 10
0.87 0.09 0.03
Matches are distributed among these distances:
123 20 0.08
124 62 0.25
125 166 0.67
126 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.34
Consensus pattern (122 bp):
TACTTTAGTGGCGTTTTAATACCAAACGCCGCTATAGAATCGTACTTTAGTGGCGTTTTTACACA
AACGCCGCTATAGACAGTATTTTATGGCGTTTTAATACAAACGCCGCTATAGACATG
Found at i:4124177 original size:21 final size:21
Alignment explanation
Indices: 4124135--4124193 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
4124125 TGATTTATTA
**
4124135 TTATGGATTTCATTTTTCTTG
1 TTATGGATTTCAAGTTTCTTG
* *
4124156 TTATGGATTTTAAGTTTGTTG
1 TTATGGATTTCAAGTTTCTTG
* *
4124177 TTATTGATGTCAAGTTT
1 TTATGGATTTCAAGTTT
4124194 ATTGGAAAAT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.19, C:0.05, G:0.19, T:0.58
Consensus pattern (21 bp):
TTATGGATTTCAAGTTTCTTG
Found at i:4124394 original size:43 final size:43
Alignment explanation
Indices: 4124346--4124594 Score: 342
Period size: 43 Copynumber: 5.8 Consensus size: 43
4124336 ACCAGATCTT
* * *
4124346 TTGCGGTATTTGTGGGAAAAACGCCGCTAAATATCAAGACCTA
1 TTGCGGCATTTGTTGGAAAAACGCCGCTAAATATCAACACCTA
*
4124389 TTGCGGCGTTTG-TGGACAAAACGCCGCTAAATATCAACACCTA
1 TTGCGGCATTTGTTGGA-AAAACGCCGCTAAATATCAACACCTA
* *
4124432 TTGCGGCATTTG-TGGAAAAAACGCCGCTAAATCTCAACACATA
1 TTGCGGCATTTGTTGG-AAAAACGCCGCTAAATATCAACACCTA
* *
4124475 TTGCGGCGTTTGTTGGAAAAACGCCGCTAAATCTCAACACCTA
1 TTGCGGCATTTGTTGGAAAAACGCCGCTAAATATCAACACCTA
* * *
4124518 TTGCGGCGTTTGTTGGAAAAA-GCCACCAAATATCAACACCTA
1 TTGCGGCATTTGTTGGAAAAACGCCGCTAAATATCAACACCTA
* *
4124560 TTGCGGCATTTGTTGGACAAACGCCGCTATATATC
1 TTGCGGCATTTGTTGGAAAAACGCCGCTAAATATC
4124595 GTTACCTATT
Statistics
Matches: 185, Mismatches: 17, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
42 40 0.22
43 141 0.76
44 4 0.02
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (43 bp):
TTGCGGCATTTGTTGGAAAAACGCCGCTAAATATCAACACCTA
Found at i:4129449 original size:20 final size:20
Alignment explanation
Indices: 4129404--4129455 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
4129394 TGATTCAATC
**
4129404 AGTATCGATACCGAAGAGGG
1 AGTATCGATACCGAAGAGAA
4129424 AGTATCGATACCGAAG-GAA
1 AGTATCGATACCGAAGAGAA
4129443 AGTTATCGATACC
1 AG-TATCGATACC
4129456 ATTTCAAAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 3 0.10
20 26 0.90
ACGTcount: A:0.37, C:0.17, G:0.27, T:0.19
Consensus pattern (20 bp):
AGTATCGATACCGAAGAGAA
Found at i:4129965 original size:55 final size:55
Alignment explanation
Indices: 4129882--4130095 Score: 281
Period size: 54 Copynumber: 3.9 Consensus size: 55
4129872 ATAGCACTAA
* *
4129882 GTGTGCAAAAACCTAAGAAATTCATACTAAGTGTATGAATTTCCGTATGAGCACTTT
1 GTGTGC-AAAA-CTAAGAAATTCATACTAAGTGTATGAATTTTCGTATGGGCACTTT
*
4129939 GTGTGCAAAACTAAGAAATGCATACTAAGTGTATGAATTTTCGTATGGGCACTTT
1 GTGTGCAAAACTAAGAAATTCATACTAAGTGTATGAATTTTCGTATGGGCACTTT
* * *
4129994 GTGTG-TAAACTAAGAAATTCATACTAAGTGTATGAATTTTCGTATGGGTACTAT
1 GTGTGCAAAACTAAGAAATTCATACTAAGTGTATGAATTTTCGTATGGGCACTTT
* * * * *
4130048 ATGTGC-GAACTAAGAAATTTATATTAAGTGTATGGAGTTTT-GTATGGG
1 GTGTGCAAAACTAAGAAATTCATACTAAGTGTAT-GAATTTTCGTATGGG
4130096 AAATATATGC
Statistics
Matches: 143, Mismatches: 12, Indels: 7
0.88 0.07 0.04
Matches are distributed among these distances:
54 80 0.56
55 53 0.37
56 4 0.03
57 6 0.04
ACGTcount: A:0.33, C:0.11, G:0.21, T:0.35
Consensus pattern (55 bp):
GTGTGCAAAACTAAGAAATTCATACTAAGTGTATGAATTTTCGTATGGGCACTTT
Found at i:4130579 original size:68 final size:68
Alignment explanation
Indices: 4130302--4130561 Score: 360
Period size: 68 Copynumber: 3.8 Consensus size: 68
4130292 AAATAAAATA
* *
4130302 TTTGAGGCCTAACTGTGCATTTGACAAAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGT
1 TTTGAGGCCTAAATGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGT
**
4130367 GTT
66 GAC
* *
4130370 TTTTAGG-CTTAATCGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAG
1 TTTGAGGCCTAAAT-GTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAG
*
4130434 TGTC
65 TGAC
* * * * * *
4130438 TTTGAAGCCTAACTATGCATTTGACAGAAAGGTGTCAATTATGTCAGTTAGATGAAAGGCGAAGT
1 TTTGAGGCCTAAATGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGT
*
4130503 GCC
66 GAC
* *
4130506 TTTGAGGCCTAAATGTGCATTTGATAGAAATGTGTCAATTATGCCAGTTAAATGAA
1 TTTGAGGCCTAAATGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAA
4130562 CGGTTAAATA
Statistics
Matches: 169, Mismatches: 21, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
67 4 0.02
68 161 0.95
69 4 0.02
ACGTcount: A:0.32, C:0.13, G:0.23, T:0.32
Consensus pattern (68 bp):
TTTGAGGCCTAAATGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGT
GAC
Found at i:4130647 original size:81 final size:81
Alignment explanation
Indices: 4130512--4130896 Score: 460
Period size: 81 Copynumber: 4.8 Consensus size: 81
4130502 TGCCTTTGAG
* * * * *
4130512 GCCTAAATGTGCATTTGATAGAAATGTGTCAATTATGCCAGTTAAATGAACGGTTAAATACT-GT
1 GCCTAACTGTGCATTTGACAAAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACTCGT
4130576 TGAGTAAAAGATGAAT
66 TGAGTAAAAGATGAAT
4130592 AGCCTAACTGTGCATTTGACAAAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATA-TCG
1 -GCCTAACTGTGCATTTGACAAAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACTCG
4130656 TTGAGTAAAAGATGAAT
65 TTGAGTAAAAGATGAAT
** * * * *
4130673 GACCTAGTTGTGCATTTGGCAGAAATGTGTCAATTATGTCAGTTAGATGAACGGTTAAATA-TCG
1 G-CCTAACTGTGCATTTGACAAAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACTCG
4130737 TTGAGTAAAAGATGAAT
65 TTGAGTAAAAGATGAAT
* * * *
4130754 GACCTAGA-TGTGCATTTGACAAAAAGATGTCAATTATGTCAGTTAGATGAATGGTTAAACACT-
1 G-CCTA-ACTGTGCATTTGACAAAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACTC
4130817 GTTGAGTAAAAGAAT-AAT
64 GTTGAGTAAAAG-ATGAAT
* * * * * * *
4130835 GGACTAGCTGTGCATTTGACAGAAAA-ATGTCAAATATGCAAGTTAGATGAAAGGCTAAATAC
1 -GCCTAACTGTGCATTTGACA-AAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATAC
4130897 CTTTAGGTAA
Statistics
Matches: 270, Mismatches: 26, Indels: 16
0.87 0.08 0.05
Matches are distributed among these distances:
80 2 0.01
81 260 0.96
82 8 0.03
ACGTcount: A:0.37, C:0.11, G:0.22, T:0.29
Consensus pattern (81 bp):
GCCTAACTGTGCATTTGACAAAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACTCGT
TGAGTAAAAGATGAAT
Found at i:4130787 original size:162 final size:161
Alignment explanation
Indices: 4130519--4130896 Score: 516
Period size: 162 Copynumber: 2.3 Consensus size: 161
4130509 GAGGCCTAAA
* *
4130519 TGTGCATTTGATAGAAATGTGTCAATTATGCCAGTTAAATGAACGGTTAAATACTGTTGAGTAAA
1 TGTGCATTTGACAGAAATGTGTCAATTATG-CAGTTAGATGAACGGTTAAATACTGTTGAGTAAA
*
4130584 AGATGAATAGCCTAACTGTGCATTTGACAAAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTA
65 AGATGAATAGCCTAACTGTGCATTTGACAAAAAGATGTCAATTATGCCAGTTAGATGAACGGTTA
* *
4130649 AATA-TCGTTGAGTAAAAG-ATGAAT-GACCTAGT
130 AACACT-GTTGAGTAAAAGAAT-AATGGA-CTAGC
*
4130681 TGTGCATTTGGCAGAAATGTGTCAATTATGTCAGTTAGATGAACGGTTAAATA-TCGTTGAGTAA
1 TGTGCATTTGACAGAAATGTGTCAATTATG-CAGTTAGATGAACGGTTAAATACT-GTTGAGTAA
* *
4130745 AAGATGAAT-GACCTAGA-TGTGCATTTGACAAAAAGATGTCAATTATGTCAGTTAGATGAATGG
64 AAGATGAATAG-CCTA-ACTGTGCATTTGACAAAAAGATGTCAATTATGCCAGTTAGATGAACGG
4130808 TTAAACACTGTTGAGTAAAAGAATAATGGACTAGC
127 TTAAACACTGTTGAGTAAAAGAATAATGGACTAGC
** * * *
4130843 TGTGCATTTGACAGAAAAATGTCAAATATGCAAGTTAGATGAAAGGCTAAATAC
1 TGTGCATTTGACAGAAATGTGTCAATTATGC-AGTTAGATGAACGGTTAAATAC
4130897 CTTTAGGTAA
Statistics
Matches: 193, Mismatches: 15, Indels: 15
0.87 0.07 0.07
Matches are distributed among these distances:
161 3 0.02
162 184 0.95
163 6 0.03
ACGTcount: A:0.37, C:0.11, G:0.22, T:0.30
Consensus pattern (161 bp):
TGTGCATTTGACAGAAATGTGTCAATTATGCAGTTAGATGAACGGTTAAATACTGTTGAGTAAAA
GATGAATAGCCTAACTGTGCATTTGACAAAAAGATGTCAATTATGCCAGTTAGATGAACGGTTAA
ACACTGTTGAGTAAAAGAATAATGGACTAGC
Found at i:4130975 original size:2 final size:2
Alignment explanation
Indices: 4130968--4130998 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
4130958 TTAAGGGATG
4130968 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4130999 ACGTAAACAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4137446 original size:2 final size:2
Alignment explanation
Indices: 4137435--4137467 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
4137425 AAACTATTAG
4137435 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4137468 ATAGATAAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:4137596 original size:2 final size:2
Alignment explanation
Indices: 4137589--4137640 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
4137579 ATGCTTGTGC
4137589 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
4137631 AG AG AG AG AG
1 AG AG AG AG AG
4137641 GGGGATATGT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4148328 original size:51 final size:51
Alignment explanation
Indices: 4148252--4148392 Score: 282
Period size: 51 Copynumber: 2.8 Consensus size: 51
4148242 AACCTTTCAT
4148252 TATGACACGTTGCGAATAGGGAATAATTTAGAAAAAGGTTAAATGAATGAA
1 TATGACACGTTGCGAATAGGGAATAATTTAGAAAAAGGTTAAATGAATGAA
4148303 TATGACACGTTGCGAATAGGGAATAATTTAGAAAAAGGTTAAATGAATGAA
1 TATGACACGTTGCGAATAGGGAATAATTTAGAAAAAGGTTAAATGAATGAA
4148354 TATGACACGTTGCGAATAGGGAATAATTTAGAAAAAGGT
1 TATGACACGTTGCGAATAGGGAATAATTTAGAAAAAGGT
4148393 CAAGGGAGAG
Statistics
Matches: 90, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 90 1.00
ACGTcount: A:0.44, C:0.06, G:0.24, T:0.26
Consensus pattern (51 bp):
TATGACACGTTGCGAATAGGGAATAATTTAGAAAAAGGTTAAATGAATGAA
Found at i:4148680 original size:24 final size:24
Alignment explanation
Indices: 4148652--4148705 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
4148642 GAAAGAGAAG
*
4148652 AAGAGATCGAGAAAGGGAACGGGA
1 AAGAGAGCGAGAAAGGGAACGGGA
* * *
4148676 TAGAGAGCGAGATATGGAACGGGA
1 AAGAGAGCGAGAAAGGGAACGGGA
4148700 AAGAGA
1 AAGAGA
4148706 AAGAGACCGC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.44, C:0.07, G:0.41, T:0.07
Consensus pattern (24 bp):
AAGAGAGCGAGAAAGGGAACGGGA
Found at i:4149646 original size:247 final size:245
Alignment explanation
Indices: 4149210--4149707 Score: 917
Period size: 247 Copynumber: 2.0 Consensus size: 245
4149200 TTTTGATGTG
4149210 GTTGATTTGTAAGGGGCGCTCGTTGTCTAATAAAGAAAGAATGTGACGGCATATGACGGATGATG
1 GTTGATTTGTAAGGGGCGCTCGTTGTCTAATAAAGAAAGAATGTGACGGCATATGACGGATGATG
* *
4149275 AGAGTTGCAGTATTTGTGGGGCAAGACAAGATTCATTATCTCATATTTTCTGAGAATGTTTGATA
66 AGAGTTGCAGTATTTGCGGGGCAAGACAAGAATCATTATCTCATATTTTCTGAGAATGTTTGATA
4149340 GCACGGTCCACATGGCTTTCTTTGATTAATATGGAACGAGAAGCAGAGTTCTTTGATTTATCATT
131 GCACGGTCCACATGGCTTTCTTTGATTAATATGGAACGAGAAGCAGAGTTCTTTGATTTATCATT
*
4149405 GGTTGATTGGATTCGGATCAATATTCAGGATCCAAGTTGTTTCTCGAATCCA
196 GGTTGATTGGATTCGGATCAATATTCAGGATCCAAGTTG-TT-TCGAATCAA
4149457 GTTGATTTGTAAGGGGCGCTCGTTGTCTAATAAAGAAAGAATGTGACGGCATATGACGGATGATG
1 GTTGATTTGTAAGGGGCGCTCGTTGTCTAATAAAGAAAGAATGTGACGGCATATGACGGATGATG
*
4149522 AGAGTTGCAGTATTTGCGGGGCAAGACAAGAATCGTTATCTCATATTTTCTGAGAATGTTTGATA
66 AGAGTTGCAGTATTTGCGGGGCAAGACAAGAATCATTATCTCATATTTTCTGAGAATGTTTGATA
*
4149587 GTGA-GGTCCACATGGCTTTCTTTGATTAATATGGAACGAGAAGCAGAGTTCTTTGATTTATCAT
131 G-CACGGTCCACATGGCTTTCTTTGATTAATATGGAACGAGAAGCAGAGTTCTTTGATTTATCAT
4149651 TGGTTGATTGGATTCGGATCAATATTCAGGATCCAAGTTGTTTCGAATCAA
195 TGGTTGATTGGATTCGGATCAATATTCAGGATCCAAGTTGTTTCGAATCAA
4149702 GTTGAT
1 GTTGAT
4149708 GATTGGGATT
Statistics
Matches: 245, Mismatches: 5, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
245 14 0.06
246 2 0.01
247 228 0.93
248 1 0.00
ACGTcount: A:0.28, C:0.13, G:0.26, T:0.34
Consensus pattern (245 bp):
GTTGATTTGTAAGGGGCGCTCGTTGTCTAATAAAGAAAGAATGTGACGGCATATGACGGATGATG
AGAGTTGCAGTATTTGCGGGGCAAGACAAGAATCATTATCTCATATTTTCTGAGAATGTTTGATA
GCACGGTCCACATGGCTTTCTTTGATTAATATGGAACGAGAAGCAGAGTTCTTTGATTTATCATT
GGTTGATTGGATTCGGATCAATATTCAGGATCCAAGTTGTTTCGAATCAA
Found at i:4153505 original size:173 final size:179
Alignment explanation
Indices: 4153200--4153522 Score: 536
Period size: 173 Copynumber: 1.8 Consensus size: 179
4153190 TTTGACGGTT
* *
4153200 CTAGAGAACTATTCACGATAGTGAAATAGTGGGAGCTATCCGAAATAGAAGCTATGGCAACGAAA
1 CTAGAGAACTATTCACGATAGTGAAATA-TGGCAGCTATCCGAAATAGAAGCTATGGCAACCAAA
4153265 TTTGATATTGAAAAGTTCAATGGGAGAAATTTCATTGTGAAAATTAAAGATGAAGGCCATCCTGA
65 TTTGATATTGAAAAGTTCAATGGGAGAAATTTCATTGTGAAAATTAAAGATGAAGGCCATCCTGA
4153330 GGAAAGACGGGTGTCTAGCGAACTAAGAAAGTAAAAAGGATCGATGACGG
130 GGAAAGACGGGTGTCTAGCGAACTAAGAAAGTAAAAAGGATCGATGACGG
*
4153380 CTAG-GAACT-TTCACGATAGTGAAAT-TGTCAGC-AT-CGAAA-A-AAGCTATGGCAACCAAAT
1 CTAGAGAACTATTCACGATAGTGAAATATGGCAGCTATCCGAAATAGAAGCTATGGCAACCAAAT
4153438 TTGATATTGAAAAGTTCAA-GGGAGAAATTTCTCATTGTGAAAATTAAAGATGAAGGCCATCCTG
66 TTGATATTGAAAAGTTCAATGGGAGAAA-TT-TCATTGTGAAAATTAAAGATGAAGGCCATCCTG
4153502 AGGAAAGACGGGTGTCTAGCG
129 AGGAAAGACGGGTGTCTAGCG
4153523 GCTATCACTG
Statistics
Matches: 138, Mismatches: 3, Indels: 11
0.91 0.02 0.07
Matches are distributed among these distances:
171 8 0.06
172 38 0.28
173 55 0.40
174 5 0.04
175 2 0.01
176 5 0.04
178 16 0.12
179 5 0.04
180 4 0.03
ACGTcount: A:0.38, C:0.13, G:0.25, T:0.23
Consensus pattern (179 bp):
CTAGAGAACTATTCACGATAGTGAAATATGGCAGCTATCCGAAATAGAAGCTATGGCAACCAAAT
TTGATATTGAAAAGTTCAATGGGAGAAATTTCATTGTGAAAATTAAAGATGAAGGCCATCCTGAG
GAAAGACGGGTGTCTAGCGAACTAAGAAAGTAAAAAGGATCGATGACGG
Found at i:4158671 original size:29 final size:27
Alignment explanation
Indices: 4158626--4158688 Score: 72
Period size: 29 Copynumber: 2.3 Consensus size: 27
4158616 ACCTACTCAA
*
4158626 ATACATACATGTAACATACATACATCAC
1 ATACATACACGTAACATACATACAT-AC
* * *
4158654 ATCACATACACGTGACATGCTTACATAC
1 AT-ACATACACGTAACATACATACATAC
4158682 ATACATA
1 ATACATA
4158689 TCATTCAAGA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
27 5 0.17
28 6 0.20
29 19 0.63
ACGTcount: A:0.43, C:0.25, G:0.06, T:0.25
Consensus pattern (27 bp):
ATACATACACGTAACATACATACATAC
Found at i:4163505 original size:90 final size:91
Alignment explanation
Indices: 4163352--4163532 Score: 355
Period size: 90 Copynumber: 2.0 Consensus size: 91
4163342 CTCTTCATAG
4163352 TCCCTTCGCCCCGGACGTCGATCACGATCTCCCTCTTTAGCTTGTGGCCTTCGGTGATCTCGGT-
1 TCCCTTCGCCCCGGACGTCGATCACGATCTCCCTCTTTAGCTTGTGGCCTTCGGTGATCTCGGTC
4163416 TCGGTTGCCTTGGTAATTCTCCCACC
66 TCGGTTGCCTTGGTAATTCTCCCACC
4163442 TCCCTTCGCCCCGGACGTCGATCACGATCTCCCTCTTTAGCTTGTGGCCTTCGGTGATCTCGGTC
1 TCCCTTCGCCCCGGACGTCGATCACGATCTCCCTCTTTAGCTTGTGGCCTTCGGTGATCTCGGTC
4163507 TCGGTTGCCTTGGTAATTCTCCCACC
66 TCGGTTGCCTTGGTAATTCTCCCACC
4163533 GTTCTCCCCC
Statistics
Matches: 90, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
90 64 0.71
91 26 0.29
ACGTcount: A:0.10, C:0.36, G:0.22, T:0.32
Consensus pattern (91 bp):
TCCCTTCGCCCCGGACGTCGATCACGATCTCCCTCTTTAGCTTGTGGCCTTCGGTGATCTCGGTC
TCGGTTGCCTTGGTAATTCTCCCACC
Found at i:4167371 original size:44 final size:44
Alignment explanation
Indices: 4167307--4167428 Score: 175
Period size: 38 Copynumber: 2.9 Consensus size: 44
4167297 AAACCTAAGT
* * *
4167307 CTAGCAGACTTGAGTATCAATTATCAGTGAAACTACATAGGTAA
1 CTAGCAGGCTTGAGTTTCAATTATCAGAGAAACTACATAGGTAA
4167351 CTAGCAGGCTTGAGTTTCAATTATCAGAG-AA--AC-T--GTAA
1 CTAGCAGGCTTGAGTTTCAATTATCAGAGAAACTACATAGGTAA
4167389 CTAGCAGGCTTGAGTTTCAATTATCAGAGAAACTACATAG
1 CTAGCAGGCTTGAGTTTCAATTATCAGAGAAACTACATAG
4167429 ATAAACTGTT
Statistics
Matches: 69, Mismatches: 3, Indels: 12
0.82 0.04 0.14
Matches are distributed among these distances:
38 33 0.48
39 2 0.03
40 1 0.01
41 4 0.06
42 1 0.01
43 2 0.03
44 26 0.38
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.28
Consensus pattern (44 bp):
CTAGCAGGCTTGAGTTTCAATTATCAGAGAAACTACATAGGTAA
Found at i:4181223 original size:6 final size:6
Alignment explanation
Indices: 4181190--4181247 Score: 64
Period size: 6 Copynumber: 9.3 Consensus size: 6
4181180 AATGACACCT
* *
4181190 TTTGTA TTTTCA TTTGGCA TTTGACA TTTGCA -TTGACA TTTGCA TTTGCA
1 TTTGCA TTTGCA TTT-GCA TTTG-CA TTTGCA TTTG-CA TTTGCA TTTGCA
4181240 TTTGCA TT
1 TTTGCA TT
4181248 ACATGCATTT
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
5 3 0.07
6 28 0.62
7 14 0.31
ACGTcount: A:0.19, C:0.14, G:0.16, T:0.52
Consensus pattern (6 bp):
TTTGCA
Found at i:4181227 original size:12 final size:13
Alignment explanation
Indices: 4181200--4181247 Score: 73
Period size: 12 Copynumber: 3.8 Consensus size: 13
4181190 TTTGTATTTT
4181200 CATTTGGCATTTGA
1 CATTT-GCATTTGA
4181214 CATTTGCA-TTGA
1 CATTTGCATTTGA
4181226 CATTTGCATTTG-
1 CATTTGCATTTGA
4181238 CATTTGCATT
1 CATTTGCATT
4181248 ACATGCATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
12 22 0.67
13 6 0.18
14 5 0.15
ACGTcount: A:0.21, C:0.17, G:0.17, T:0.46
Consensus pattern (13 bp):
CATTTGCATTTGA
Found at i:4185454 original size:46 final size:46
Alignment explanation
Indices: 4185387--4185490 Score: 190
Period size: 46 Copynumber: 2.3 Consensus size: 46
4185377 TAAACAATTT
4185387 AAGTCCTTCGGGACCATCAGTAACTCTTTCGAGCATGATGATTAAA
1 AAGTCCTTCGGGACCATCAGTAACTCTTTCGAGCATGATGATTAAA
*
4185433 AAGTCCTTCGGGACCATCAGTAAGTCTTTCGAGCATGATGATTAAA
1 AAGTCCTTCGGGACCATCAGTAACTCTTTCGAGCATGATGATTAAA
*
4185479 AAATCCTTCGGG
1 AAGTCCTTCGGG
4185491 TCATCTATAA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 56 1.00
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (46 bp):
AAGTCCTTCGGGACCATCAGTAACTCTTTCGAGCATGATGATTAAA
Found at i:4185721 original size:42 final size:42
Alignment explanation
Indices: 4185659--4185751 Score: 150
Period size: 42 Copynumber: 2.2 Consensus size: 42
4185649 ACTTAGTAAG
* *
4185659 TCCTTCGGGACATCAATAAGTCTTTCGAGCATGATGCTTAAA
1 TCCTTAGGGACATCAATAAGTCTTTCGAGCATGATGATTAAA
* *
4185701 TCCTTAGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAA
1 TCCTTAGGGACATCAATAAGTCTTTCGAGCATGATGATTAAA
4185743 TCCTTAGGG
1 TCCTTAGGG
4185752 TAATTTGTAA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (42 bp):
TCCTTAGGGACATCAATAAGTCTTTCGAGCATGATGATTAAA
Found at i:4185762 original size:42 final size:42
Alignment explanation
Indices: 4185670--4186004 Score: 157
Period size: 42 Copynumber: 7.9 Consensus size: 42
4185660 CCTTCGGGAC
* * *
4185670 ATCAATAAGTCTTTCGAGCATGATGCTTAAATCCTTAGGGCC
1 ATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTAGGGCA
*
4185712 ATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTAGGGTA
1 ATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTAGGGCA
** * * ** * *
4185754 ATTTGTAAGCCTTCACGGAAG-A-GTAGTGAAGCAAACCCATCAGTAAGTG-A
1 ATCAGTAAGTCTT-TC-G-AGCATG-A-TG-ATTAAATCC-T---T-AGGGCA
* * * * *
4185804 CATCAGTAAGTCTTTCAAGCATGATGATGAAGTCCTTCGGGCC
1 -ATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTAGGGCA
* *
4185847 ATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGAA
1 ATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTAGGGCA
** * * * * * * *** *
4185889 ATTTGTAAG-CCTTC-ACGGAAGA-GTAGTGAA-GC--AAACCC
1 ATCAGTAAGTCTTTCGA-GCATGATG-ATTAAATCCTTAGGGCA
* * * *
4185927 ATCAGTAAGTCTTTCGAGCATGATGATGAAGTCCTTCGGGCT
1 ATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTAGGGCA
*
4185969 ATCAGTAAGTATTTCGAGCATGATGATTAAATCCTT
1 ATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTT
4186005 CGGGTAATTT
Statistics
Matches: 209, Mismatches: 61, Indels: 46
0.66 0.19 0.15
Matches are distributed among these distances:
38 7 0.03
39 10 0.05
40 6 0.03
41 12 0.06
42 128 0.61
43 3 0.01
44 3 0.01
45 4 0.02
46 7 0.03
47 6 0.03
48 4 0.02
49 2 0.01
50 4 0.02
51 13 0.06
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (42 bp):
ATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTAGGGCA
Found at i:4185909 original size:135 final size:135
Alignment explanation
Indices: 4185667--4185936 Score: 468
Period size: 135 Copynumber: 2.0 Consensus size: 135
4185657 AGTCCTTCGG
* * *
4185667 GACATCAATAAGTCTTTCGAGCATGATGCTTAAATCCTTAGGGCCATCAGTAAGTCTTTCGAGCA
1 GACATCAATAAGTCTTTCAAGCATGATGATGAAATCCTTAGGGCCATCAGTAAGTCTTTCGAGCA
*
4185732 TGATGATTAAATCCTTAGGGTAATTTGTAAGCCTTCACGGAAGAGTAGTGAAGCAAACCCATCAG
66 TGATGATTAAATCCTTAGGGAAATTTGTAAGCCTTCACGGAAGAGTAGTGAAGCAAACCCATCAG
4185797 TAAGT
131 TAAGT
* * *
4185802 GACATCAGTAAGTCTTTCAAGCATGATGATGAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCA
1 GACATCAATAAGTCTTTCAAGCATGATGATGAAATCCTTAGGGCCATCAGTAAGTCTTTCGAGCA
*
4185867 TGATGATTAAATCCTTCGGGAAATTTGTAAGCCTTCACGGAAGAGTAGTGAAGCAAACCCATCAG
66 TGATGATTAAATCCTTAGGGAAATTTGTAAGCCTTCACGGAAGAGTAGTGAAGCAAACCCATCAG
4185932 TAAGT
131 TAAGT
4185937 CTTTCGAGCA
Statistics
Matches: 127, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
135 127 1.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.27
Consensus pattern (135 bp):
GACATCAATAAGTCTTTCAAGCATGATGATGAAATCCTTAGGGCCATCAGTAAGTCTTTCGAGCA
TGATGATTAAATCCTTAGGGAAATTTGTAAGCCTTCACGGAAGAGTAGTGAAGCAAACCCATCAG
TAAGT
Found at i:4185958 original size:22 final size:23
Alignment explanation
Indices: 4185931--4185995 Score: 66
Period size: 22 Copynumber: 3.0 Consensus size: 23
4185921 AAACCCATCA
4185931 GTAAGTCTTTCGAGCATGATGAT
1 GTAAGTCTTTCGAGCATGATGAT
* * *
4185954 G-AAGTCCTTCGGGC-T-ATCA-
1 GTAAGTCTTTCGAGCATGATGAT
*
4185973 GTAAGTATTTCGAGCATGATGAT
1 GTAAGTCTTTCGAGCATGATGAT
4185996 TAAATCCTTC
Statistics
Matches: 31, Mismatches: 7, Indels: 8
0.67 0.15 0.17
Matches are distributed among these distances:
19 1 0.03
20 13 0.42
21 2 0.06
22 14 0.45
23 1 0.03
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.32
Consensus pattern (23 bp):
GTAAGTCTTTCGAGCATGATGAT
Found at i:4186021 original size:122 final size:122
Alignment explanation
Indices: 4185804--4186088 Score: 498
Period size: 122 Copynumber: 2.3 Consensus size: 122
4185794 CAGTAAGTGA
* *
4185804 CATCAGTAAGTCTTTCAAGCATGATGATGAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATG
1 CATCAGTAAGTCTTTCGAGCATGATGATGAAGTCCTTCGGGCCATCAGTAAGTATTTCGAGCATG
*
4185869 ATGATTAAATCCTTCGGGAAATTTGTAAGCCTTCACGGAAGAGTAGTGAAGCAAACC
66 ATGATTAAATCCTTCGGGAAATTTGTAAGCCTTCACGGAAGAGTAGTGAAACAAACC
*
4185926 CATCAGTAAGTCTTTCGAGCATGATGATGAAGTCCTTCGGGCTATCAGTAAGTATTTCGAGCATG
1 CATCAGTAAGTCTTTCGAGCATGATGATGAAGTCCTTCGGGCCATCAGTAAGTATTTCGAGCATG
* * *
4185991 ATGATTAAATCCTTCGGGTAATTTGTAAGCCTTCACTGAAGAGTAGTGAAACAAATC
66 ATGATTAAATCCTTCGGGAAATTTGTAAGCCTTCACGGAAGAGTAGTGAAACAAACC
*
4186048 CATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTCGGG
1 CATCAGTAAGTCTTTCGAGCATGATGATGAAGTCCTTCGGG
4186089 TAATTTGTAA
Statistics
Matches: 155, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
122 155 1.00
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.29
Consensus pattern (122 bp):
CATCAGTAAGTCTTTCGAGCATGATGATGAAGTCCTTCGGGCCATCAGTAAGTATTTCGAGCATG
ATGATTAAATCCTTCGGGAAATTTGTAAGCCTTCACGGAAGAGTAGTGAAACAAACC
Found at i:4186575 original size:53 final size:53
Alignment explanation
Indices: 4186512--4186826 Score: 400
Period size: 53 Copynumber: 5.9 Consensus size: 53
4186502 GAATCATACC
4186512 AGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGT
1 AGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGT
* * *
4186565 AGAAGATTGTTCGAGTTTTACTCCCTGAAGCAAGAGGGAGCGAACTCGTAGCT
1 AGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGT
* * *
4186618 AGAAGATTGTTCGAGTTCTACTCCTTGAAGCAAGGGGGAGTGAACCCGTAGGT
1 AGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGT
* * * * * *
4186671 AGAAGATTGTTCGAGTTCTACCCCCTGAAGCAAGAGGTAGTGAACCCATAAGC
1 AGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGT
* * * * ***
4186724 AGAAGATTATTCGAGTTCTACTCCCTGAAGTAATAGGGAGAGAACCCGTTTTT
1 AGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGT
* *
4186777 AGAAGATTGCTCGAGTTCCTTAATCCCTGAA-CAAGAGGGAGC-AGACCCGT
1 AGAAGATTGTTCGAGTT-C-TACTCCCTGAAGCAAGAGGGAGCGA-ACCCGT
4186827 CATTTGAAGA
Statistics
Matches: 226, Mismatches: 33, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
53 201 0.89
54 15 0.07
55 10 0.04
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.23
Consensus pattern (53 bp):
AGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGT
Found at i:4189430 original size:28 final size:28
Alignment explanation
Indices: 4189393--4189465 Score: 128
Period size: 28 Copynumber: 2.6 Consensus size: 28
4189383 TTTTTAAAAT
* *
4189393 TTATTAATTATAAATATCAAATAAATAA
1 TTATTTATTAAAAATATCAAATAAATAA
4189421 TTATTTATTAAAAATATCAAATAAATAA
1 TTATTTATTAAAAATATCAAATAAATAA
4189449 TTATTTATTAAAAATAT
1 TTATTTATTAAAAATAT
4189466 TATTATTATT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (28 bp):
TTATTTATTAAAAATATCAAATAAATAA
Found at i:4189463 original size:21 final size:21
Alignment explanation
Indices: 4189439--4189489 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
4189429 TAAAAATATC
4189439 AAATAAATAATTATTTATTAA
1 AAATAAATAATTATTTATTAA
* * *
4189460 AAATATTATTATTATTTTTTAA
1 AAATA-AATAATTATTTATTAA
4189482 AATATAAA
1 AA-ATAAA
4189490 GATAAATTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
21 5 0.21
22 16 0.67
23 3 0.12
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
AAATAAATAATTATTTATTAA
Found at i:4189632 original size:19 final size:19
Alignment explanation
Indices: 4189579--4189642 Score: 53
Period size: 19 Copynumber: 3.4 Consensus size: 19
4189569 AGTTGTATAT
*
4189579 TTTATTTAAATAA-AATTA
1 TTTATTAAAATAATAATTA
*
4189597 -TTA-TAAATTATATTAATTA
1 TTTATTAAA--ATAATAATTA
*
4189616 TTTATTAAAATAATAATAA
1 TTTATTAAAATAATAATTA
*
4189635 TATATTAA
1 TTTATTAA
4189643 TATTTTTATT
Statistics
Matches: 36, Mismatches: 5, Indels: 9
0.72 0.10 0.18
Matches are distributed among these distances:
16 3 0.08
17 3 0.08
18 3 0.08
19 20 0.56
20 3 0.08
21 4 0.11
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
TTTATTAAAATAATAATTA
Found at i:4189869 original size:29 final size:29
Alignment explanation
Indices: 4189808--4189869 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 29
4189798 CTGATAATTT
*
4189808 ATTATATATTATTAAAATATAAGTTTAAT
1 ATTATATATTATTAAAATATAAGTTTAAG
4189837 ATTATATATTA-TAATAATATAA-TTATAAG
1 ATTATATATTATTAA-AATATAAGTT-TAAG
4189866 ATTA
1 ATTA
4189870 AAAATATATT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 5 0.17
29 25 0.83
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (29 bp):
ATTATATATTATTAAAATATAAGTTTAAG
Found at i:4189896 original size:35 final size:35
Alignment explanation
Indices: 4189807--4189897 Score: 96
Period size: 35 Copynumber: 2.6 Consensus size: 35
4189797 ACTGATAATT
* * * *
4189807 TATTA-TATATTATTAAAATATAAGTTTAATATTA
1 TATTATTATATTATTAAATTATAAGATTAAAAATA
* *
4189841 TA-TATTATAATAATATAATTATAAGATTAAAAATA
1 TATTATTATATTATTA-AATTATAAGATTAAAAATA
*
4189876 TATTATTATTTTATTAAATTAT
1 TATTATTATATTATTAAATTAT
4189898 TAATAAATAT
Statistics
Matches: 45, Mismatches: 9, Indels: 5
0.76 0.15 0.08
Matches are distributed among these distances:
33 2 0.04
34 10 0.22
35 23 0.51
36 10 0.22
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.49
Consensus pattern (35 bp):
TATTATTATATTATTAAATTATAAGATTAAAAATA
Found at i:4191167 original size:31 final size:32
Alignment explanation
Indices: 4191111--4191175 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 32
4191101 ATATACATGA
* *
4191111 AATCATTAAAAATATTTTAATATTCAAATTAT
1 AATCATAAAAAATATTTTAAGATTCAAATTAT
*
4191143 AATCATAAAAAATA-TTTAGGATTCAAATTAT
1 AATCATAAAAAATATTTTAAGATTCAAATTAT
4191174 AA
1 AA
4191176 ATTTATCTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 17 0.57
32 13 0.43
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.38
Consensus pattern (32 bp):
AATCATAAAAAATATTTTAAGATTCAAATTAT
Found at i:4192516 original size:57 final size:58
Alignment explanation
Indices: 4192404--4192516 Score: 140
Period size: 57 Copynumber: 2.0 Consensus size: 58
4192394 GATTGTCTTG
* * * *
4192404 TTGAGTCTTCCGACTATTAAAAGTTATAAAACAGTCTCCTGACTATGTCACTATTTTA
1 TTGAGTCTCCCGACTATTAAAAGTTACAAAACAGTCACCTGACTATGTCAATATTTTA
* * *
4192462 TTGAGT-TCCCGATTATTAAAAGTTACAAAATAGTCACTTGACTAT-TCATATATTT
1 TTGAGTCTCCCGACTATTAAAAGTTACAAAACAGTCACCTGACTATGTCA-ATATTT
4192517 CAAACTCATC
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
56 3 0.06
57 38 0.81
58 6 0.13
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.39
Consensus pattern (58 bp):
TTGAGTCTCCCGACTATTAAAAGTTACAAAACAGTCACCTGACTATGTCAATATTTTA
Found at i:4195191 original size:14 final size:14
Alignment explanation
Indices: 4195172--4195230 Score: 55
Period size: 14 Copynumber: 3.8 Consensus size: 14
4195162 TGGTTTTCTG
4195172 GAAAACCAATTCCA
1 GAAAACCAATTCCA
*
4195186 GAAAACCAATTACATTTA
1 GAAAACCAATT-C---CA
4195204 TGGAAAACCAATTCCA
1 --GAAAACCAATTCCA
4195220 GAAAACCAATT
1 GAAAACCAATT
4195231 ATGTTGTTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 12
0.73 0.04 0.24
Matches are distributed among these distances:
14 22 0.59
15 1 0.03
16 1 0.03
18 1 0.03
19 1 0.03
20 11 0.30
ACGTcount: A:0.49, C:0.22, G:0.08, T:0.20
Consensus pattern (14 bp):
GAAAACCAATTCCA
Found at i:4195394 original size:15 final size:15
Alignment explanation
Indices: 4195374--4195402 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
4195364 TTTTTTAAGT
4195374 TATTTTATAAAATTG
1 TATTTTATAAAATTG
4195389 TATTTTATAAAATT
1 TATTTTATAAAATT
4195403 TTGAAATGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.55
Consensus pattern (15 bp):
TATTTTATAAAATTG
Found at i:4197159 original size:33 final size:33
Alignment explanation
Indices: 4197121--4197209 Score: 160
Period size: 33 Copynumber: 2.7 Consensus size: 33
4197111 AAATTATATA
* *
4197121 TTCAATGTCCAACAATCTAAAAATATTTTCAAT
1 TTCAATATCCAACAAACTAAAAATATTTTCAAT
4197154 TTCAATATCCAACAAACTAAAAATATTTTCAAT
1 TTCAATATCCAACAAACTAAAAATATTTTCAAT
4197187 TTCAATATCCAACAAACTAAAAA
1 TTCAATATCCAACAAACTAAAAA
4197210 CAACAATATC
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 54 1.00
ACGTcount: A:0.48, C:0.19, G:0.01, T:0.31
Consensus pattern (33 bp):
TTCAATATCCAACAAACTAAAAATATTTTCAAT
Found at i:4199101 original size:36 final size:36
Alignment explanation
Indices: 4199044--4199175 Score: 196
Period size: 36 Copynumber: 3.7 Consensus size: 36
4199034 TTCATAAGTA
* *
4199044 TTAAGTTTTTACCTAAAGCTAAAGTTCATATTAGGT
1 TTAAGCTTTTACCTAAAGCTAAAGTTCATATTACGT
* *
4199080 ATT-AGCTTTTTCCTAAAGCTAAAGTTCATATCACGT
1 -TTAAGCTTTTACCTAAAGCTAAAGTTCATATTACGT
*
4199116 TTAAACTTTTACCTAAAGCTAAAGTTCATATTACGT
1 TTAAGCTTTTACCTAAAGCTAAAGTTCATATTACGT
4199152 TTAAGCTTTTACCT-AAGCTAAAGT
1 TTAAGCTTTTACCTAAAGCTAAAGT
4199176 GGATGTAATT
Statistics
Matches: 86, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
35 12 0.14
36 72 0.84
37 2 0.02
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.39
Consensus pattern (36 bp):
TTAAGCTTTTACCTAAAGCTAAAGTTCATATTACGT
Found at i:4199836 original size:35 final size:36
Alignment explanation
Indices: 4199714--4199870 Score: 264
Period size: 36 Copynumber: 4.4 Consensus size: 36
4199704 AATTTAGTTA
4199714 ACCTAAAGCTAAAGTTCATATTACGTTTAAGCTTTT
1 ACCTAAAGCTAAAGTTCATATTACGTTTAAGCTTTT
* *
4199750 ACCTAAAGCTAAAGTTTATATTACATTTAAGCTTTT
1 ACCTAAAGCTAAAGTTCATATTACGTTTAAGCTTTT
*
4199786 ACCTAAAGCTAAAGTTCATATTGCGTTTAAGCTTTT
1 ACCTAAAGCTAAAGTTCATATTACGTTTAAGCTTTT
*
4199822 ACC-AAAGCTAAAGTTCATATTGCGTTTAAGCTTTT
1 ACCTAAAGCTAAAGTTCATATTACGTTTAAGCTTTT
4199857 ACCT-AAGCTAAAGT
1 ACCTAAAGCTAAAGT
4199871 GGATGTAATT
Statistics
Matches: 115, Mismatches: 5, Indels: 3
0.93 0.04 0.02
Matches are distributed among these distances:
35 45 0.39
36 70 0.61
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.38
Consensus pattern (36 bp):
ACCTAAAGCTAAAGTTCATATTACGTTTAAGCTTTT
Found at i:4200123 original size:34 final size:34
Alignment explanation
Indices: 4200084--4200160 Score: 136
Period size: 34 Copynumber: 2.3 Consensus size: 34
4200074 CATATAACAT
4200084 AAATATTAATCGATGAGAACAAATTGACAATACG
1 AAATATTAATCGATGAGAACAAATTGACAATACG
* *
4200118 AAATATTAATTGATGAGAACAAATTGGCAATACG
1 AAATATTAATCGATGAGAACAAATTGACAATACG
4200152 AAATATTAA
1 AAATATTAA
4200161 AAATCCTGAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 41 1.00
ACGTcount: A:0.51, C:0.09, G:0.14, T:0.26
Consensus pattern (34 bp):
AAATATTAATCGATGAGAACAAATTGACAATACG
Found at i:4205286 original size:29 final size:29
Alignment explanation
Indices: 4205253--4205315 Score: 110
Period size: 29 Copynumber: 2.2 Consensus size: 29
4205243 TTTATATTAT
4205253 GTCACTAAAAATGTGACAATATC-TCTTTC
1 GTCACTAAAAATGTGACAATA-CATCTTTC
4205282 GTCACTAAAAATGTGACAATACATCTTTC
1 GTCACTAAAAATGTGACAATACATCTTTC
4205311 GTCAC
1 GTCAC
4205316 ATATGGGTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 1 0.03
29 32 0.97
ACGTcount: A:0.35, C:0.22, G:0.11, T:0.32
Consensus pattern (29 bp):
GTCACTAAAAATGTGACAATACATCTTTC
Found at i:4209140 original size:22 final size:23
Alignment explanation
Indices: 4209101--4209162 Score: 74
Period size: 22 Copynumber: 2.7 Consensus size: 23
4209091 TTCCCCTGTG
4209101 GGGGGAATCGGTTCCCCTTCA-AA
1 GGGGGAATCGGTT-CCCTTCATAA
*
4209124 GGGGGAATCGGTTCCC-TCATGA
1 GGGGGAATCGGTTCCCTTCATAA
* *
4209146 GGGGGGATCGATTCCCT
1 GGGGGAATCGGTTCCCT
4209163 CTCCACCAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
21 3 0.09
22 18 0.53
23 13 0.38
ACGTcount: A:0.18, C:0.24, G:0.35, T:0.23
Consensus pattern (23 bp):
GGGGGAATCGGTTCCCTTCATAA
Found at i:4209163 original size:22 final size:23
Alignment explanation
Indices: 4209078--4209163 Score: 74
Period size: 23 Copynumber: 3.9 Consensus size: 23
4209068 ACAGAACCCC
*
4209078 AGGGGGGTATCGATTCCC-C-TG
1 AGGGGGGAATCGATTCCCTCATG
* *
4209099 TGGGGGGAATCGGTTCCCCTTCA--
1 AGGGGGGAATCGATT-CCC-TCATG
* *
4209122 AAGGGGGAATCGGTTCCCTCATG
1 AGGGGGGAATCGATTCCCTCATG
4209145 AGGGGGG-ATCGATTCCCTC
1 AGGGGGGAATCGATTCCCTC
4209164 TCCACCAAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
21 15 0.29
22 17 0.33
23 19 0.37
24 1 0.02
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.23
Consensus pattern (23 bp):
AGGGGGGAATCGATTCCCTCATG
Found at i:4216415 original size:23 final size:22
Alignment explanation
Indices: 4216385--4216429 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 22
4216375 CGCGCCTCAC
4216385 CCTTTTGTTTTTGTCTATTTAAT
1 CCTTTTGTTTTTGT-TATTTAAT
*
4216408 CCTTTTGTTTTTGTTTTTTAAT
1 CCTTTTGTTTTTGTTATTTAAT
4216430 TGTTGGTGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 7 0.33
23 14 0.67
ACGTcount: A:0.11, C:0.11, G:0.09, T:0.69
Consensus pattern (22 bp):
CCTTTTGTTTTTGTTATTTAAT
Found at i:4225137 original size:23 final size:23
Alignment explanation
Indices: 4225106--4225157 Score: 86
Period size: 23 Copynumber: 2.2 Consensus size: 23
4225096 ACGAACTTGT
*
4225106 ACGTATAAATGAATATGTTCATGA
1 ACGT-TAAATGAATATGTTCACGA
4225130 ACGTTAAATGAATATGTTCACGA
1 ACGTTAAATGAATATGTTCACGA
4225153 ACGTT
1 ACGTT
4225158 TGTAGACACC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
23 23 0.85
24 4 0.15
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (23 bp):
ACGTTAAATGAATATGTTCACGA
Found at i:4225214 original size:17 final size:17
Alignment explanation
Indices: 4225192--4225230 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
4225182 TCTATTAAAA
4225192 TATTTTATT-GTATTATT
1 TATTTTATTAGTATTA-T
*
4225209 TATTTTATTATTATTAT
1 TATTTTATTAGTATTAT
4225226 TATTT
1 TATTT
4225231 CTTTTATAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.72
Consensus pattern (17 bp):
TATTTTATTAGTATTAT
Found at i:4226388 original size:29 final size:29
Alignment explanation
Indices: 4226350--4226409 Score: 77
Period size: 30 Copynumber: 2.1 Consensus size: 29
4226340 ATTTTGGCCC
* *
4226350 TTTTATTTAT-TTATTTACTTTTTTTAAT
1 TTTTATTTATCTTATTAACATTTTTTAAT
*
4226378 TTTTATTTTATCTTCTTAACATTTTTTAAT
1 TTTTA-TTTATCTTATTAACATTTTTTAAT
4226408 TT
1 TT
4226410 CAAACCTTAG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 5 0.19
29 5 0.19
30 17 0.63
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.72
Consensus pattern (29 bp):
TTTTATTTATCTTATTAACATTTTTTAAT
Found at i:4230341 original size:106 final size:106
Alignment explanation
Indices: 4230214--4231487 Score: 2050
Period size: 106 Copynumber: 12.0 Consensus size: 106
4230204 GTATCGTGCC
* * * * *
4230214 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAATAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
4230279 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
**
4230320 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTTTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
4230385 AATTTCAGAGCCAATTTCAACTTCACAGCGAATGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
4230426 ACTCAAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
4230491 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
4230532 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
4230597 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
4230638 ACTCCAGACAACACAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAATAAACAACTTTCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
4230703 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
4230744 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
4230809 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
4230850 ACTCCAGACAACGTATGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
4230915 AATATCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * *
4230956 ACTCCAGACAACGTATGTTCAACTTCACGACGAAGGGACCGTTGGTTGTCAACGAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
4231021 AATATCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
4231062 ACTCCAGACAACGCATGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
4231127 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
4231168 ACTCCAGACAACGTATGTTCAACTTCACGATGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
4231233 AATATCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * *
4231274 ACTCCAGACAACGTATGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAAC-ATTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
4231338 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
**
4231379 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAATGA-TTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * *
4231443 GATTCCAGAGCCAATTTCAACTTCAC-GACGGAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAG-CGAAGGATATTGG
4231484 ACTC
1 ACTC
4231488 GGAACAATGC
Statistics
Matches: 1104, Mismatches: 62, Indels: 5
0.94 0.05 0.00
Matches are distributed among these distances:
105 143 0.13
106 961 0.87
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:4232113 original size:17 final size:17
Alignment explanation
Indices: 4232091--4232129 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
4232081 TCTATTAAAA
4232091 TATTTTATT-GTATTATT
1 TATTTTATTAGTATTA-T
*
4232108 TATTTTATTATTATTAT
1 TATTTTATTAGTATTAT
4232125 TATTT
1 TATTT
4232130 CTTTTATAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.72
Consensus pattern (17 bp):
TATTTTATTAGTATTAT
Found at i:4233279 original size:29 final size:29
Alignment explanation
Indices: 4233241--4233300 Score: 77
Period size: 30 Copynumber: 2.1 Consensus size: 29
4233231 ATTTTGGCCC
* *
4233241 TTTTATTTAT-TTATTTACTTTTTTTAAT
1 TTTTATTTATCTTATTAACATTTTTTAAT
*
4233269 TTTTATTTTATCTTCTTAACATTTTTTAAT
1 TTTTA-TTTATCTTATTAACATTTTTTAAT
4233299 TT
1 TT
4233301 CAAACCTTAG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 5 0.19
29 5 0.19
30 17 0.63
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.72
Consensus pattern (29 bp):
TTTTATTTATCTTATTAACATTTTTTAAT
Found at i:4236631 original size:31 final size:31
Alignment explanation
Indices: 4236596--4236669 Score: 98
Period size: 31 Copynumber: 2.4 Consensus size: 31
4236586 ATCACGGTGG
*
4236596 AGTGACAATTTTGTTACAAATCT-ATAATTTT
1 AGTGACAATTTTGTTACAAAT-TGATAATATT
4236627 AGTGATC-ATTTTGTTACAAATTGATAATATT
1 AGTGA-CAATTTTGTTACAAATTGATAATATT
4236658 AGTGACTAATTT
1 AGTGAC-AATTT
4236670 GTTTCTTTTG
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
30 2 0.05
31 31 0.82
32 5 0.13
ACGTcount: A:0.35, C:0.08, G:0.12, T:0.45
Consensus pattern (31 bp):
AGTGACAATTTTGTTACAAATTGATAATATT
Found at i:4242436 original size:17 final size:16
Alignment explanation
Indices: 4242394--4242436 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
4242384 TTCGATTGCA
*
4242394 TGTTTAATTTTGTATT
1 TGTTTAATTTAGTATT
*
4242410 TATTTCAATTTAGTCATT
1 TGTTT-AATTTAGT-ATT
4242428 TGTTTAATT
1 TGTTTAATT
4242437 CACATAGTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
16 4 0.18
17 11 0.50
18 7 0.32
ACGTcount: A:0.23, C:0.05, G:0.09, T:0.63
Consensus pattern (16 bp):
TGTTTAATTTAGTATT
Found at i:4246259 original size:24 final size:23
Alignment explanation
Indices: 4246207--4246259 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
4246197 AAAAAACACA
*
4246207 AAAAAAGAAAGAAGAGAAAGAAG
1 AAAACAGAAAGAAGAGAAAGAAG
4246230 AAAACAGAAA-AAGAGAAAAGAAAG
1 AAAACAGAAAGAAGAG-AAAG-AAG
4246254 AAAACA
1 AAAACA
4246260 TATCCAACAC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 5 0.19
23 13 0.48
24 9 0.33
ACGTcount: A:0.75, C:0.04, G:0.21, T:0.00
Consensus pattern (23 bp):
AAAACAGAAAGAAGAGAAAGAAG
Found at i:4248358 original size:54 final size:55
Alignment explanation
Indices: 4248214--4248428 Score: 199
Period size: 57 Copynumber: 3.9 Consensus size: 55
4248204 CAATCTATAT
* * * *
4248214 GAATTTT-AAAGAAGCTATGTTTGATTTTCAGAGGTTT-TGTGAT-ATGATGTTTCAAA
1 GAATTTTAAAAGAAGCTAAGCTTGATTTT-AGGGGTTTCT-TGATGAT-AT-TTCCAAA
* * *
4248270 CAAATTTGAAAGAAGCTAAGCTTGATTTTCAGGGGTTTCTTGATG-T-TTT-CAAA
1 GAATTTTAAAAGAAGCTAAGCTTGATTTT-AGGGGTTTCTTGATGATATTTCCAAA
*
4248323 TGAATTTTAAAAGAAGCTAAGCCTGACTTTTAGGGGTTTCTTGATGATTATTTCCAAA
1 -GAATTTTAAAAGAAGCTAAGCTTGA-TTTTAGGGGTTTCTTGATGA-TATTTCCAAA
* ** *
4248381 GAATTTTTAAAGAATATAAGCTTAATTTTTAGGGGTTTCTTGATGATA
1 GAATTTTAAAAGAAGCTAAGCTTGA-TTTTAGGGGTTTCTTGATGATA
4248429 ACTGTAAACG
Statistics
Matches: 135, Mismatches: 15, Indels: 18
0.80 0.09 0.11
Matches are distributed among these distances:
53 4 0.03
54 38 0.28
55 5 0.04
56 8 0.06
57 75 0.56
58 5 0.04
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.40
Consensus pattern (55 bp):
GAATTTTAAAAGAAGCTAAGCTTGATTTTAGGGGTTTCTTGATGATATTTCCAAA
Found at i:4248451 original size:57 final size:56
Alignment explanation
Indices: 4248278--4248481 Score: 161
Period size: 57 Copynumber: 3.6 Consensus size: 56
4248268 AACAAATTTG
* * * *
4248278 AAAGAAGCTAAGCTTGATTTTCAGGGGTTTCTTGATG-T--TTTCAAATGAA-TTTT
1 AAAGAAACTAAGCTTAATTTTTAGGGGTTTCTTGATGATAATGTCAAA-GAAGTTTT
* * * * * * *
4248331 AAAAGAAGCTAAGCCTGACTTTTAGGGGTTTCTTGATGATTATTTCCAAAGAATTTTT
1 -AAAGAAACTAAGCTTAATTTTTAGGGGTTTCTTGATGATAATGT-CAAAGAAGTTTT
4248389 AAAGAATA-TAAGCTTAATTTTTAGGGGTTTCTTGATGATAACTGT-AAACGAAAGTTTT
1 AAAGAA-ACTAAGCTTAATTTTTAGGGGTTTCTTGATGATAA-TGTCAAA-G-AAGTTTT
* * * *
4248447 -AAGAAACTAAGTTTGATTTTCAAGGGTTTCTTGAT
1 AAAGAAACTAAGCTTAATTTTTAGGGGTTTCTTGAT
4248482 TAGTAAGTCC
Statistics
Matches: 126, Mismatches: 14, Indels: 17
0.80 0.09 0.11
Matches are distributed among these distances:
54 34 0.27
55 1 0.01
56 4 0.03
57 71 0.56
58 16 0.13
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (56 bp):
AAAGAAACTAAGCTTAATTTTTAGGGGTTTCTTGATGATAATGTCAAAGAAGTTTT
Found at i:4249084 original size:54 final size:51
Alignment explanation
Indices: 4249020--4249210 Score: 132
Period size: 54 Copynumber: 3.5 Consensus size: 51
4249010 TTTTACACAA
*
4249020 TCAATATGAATTTTAAAGAAGCTATGTTTGATTTTCAGATTGTGATATGATGTTT
1 TCAA-ATGAATTTTAAAGAAGCTAAGTTTGATTTTCAGATT-T-AT-TGATGTTT
* * * ** * * *
4249075 TCAAATGAATATGAAAGAAACTAAGCCTAATTTTCAAGGGTTTCTTGATGTTT
1 TCAAATGAATTTTAAAGAAGCTAAGTTTGATTTTC-A-GATTTATTGATGTTT
* * * *
4249128 TCAAATAAATTTTGAAAGAAGCTAAGTTTGACTTTCAGGGGTTTCTTGATGATTATT
1 TCAAATGAATTTT-AAAGAAGCTAAGTTTGATTTTCA--GATTTATTGATG--T-TT
4249185 TCCAAA-GAATTTTTAAAGAAGCTAAG
1 T-CAAATGAA-TTTTAAAGAAGCTAAG
4249211 CCTAATTTTT
Statistics
Matches: 109, Mismatches: 18, Indels: 16
0.76 0.13 0.11
Matches are distributed among these distances:
53 19 0.17
54 55 0.50
55 6 0.06
56 4 0.04
57 17 0.16
58 8 0.07
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.39
Consensus pattern (51 bp):
TCAAATGAATTTTAAAGAAGCTAAGTTTGATTTTCAGATTTATTGATGTTT
Found at i:4249285 original size:58 final size:55
Alignment explanation
Indices: 4249088--4249292 Score: 193
Period size: 57 Copynumber: 3.7 Consensus size: 55
4249078 AATGAATATG
*
4249088 AAAGAAACTAAGCCTAATTTTCAAGGGTTTCTTGATG-T-TTTCAAATAAATTTT
1 AAAGAAACTAAGCCTAATTTTCAAGGGTTTCTTGATGATATTTCAAAGAAATTTT
* ** * * * *
4249141 GAAAGAAGCTAAGTTTGACTTTCAGGGGTTTCTTGATGATTATTTCCAAAGAATTTTT
1 -AAAGAAACTAAGCCTAATTTTCAAGGGTTTCTTGATGA-TATTT-CAAAGAAATTTT
* * *
4249199 AAAGAAGCTAAGCCTAATTTTTATGGGTTTCTTGATGATAATTGT-AAACGAAAGTTTT
1 AAAGAAACTAAGCCTAATTTTCAAGGGTTTCTTGATGAT-ATT-TCAAA-GAAA-TTTT
* *
4249257 -AAGAAAACTAAGCTTGATTTTCAAGGGTTTCTTGAT
1 AAAG-AAACTAAGCCTAATTTTCAAGGGTTTCTTGAT
4249293 TATTAAGTCC
Statistics
Matches: 122, Mismatches: 20, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
54 31 0.25
56 5 0.04
57 44 0.36
58 42 0.34
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.39
Consensus pattern (55 bp):
AAAGAAACTAAGCCTAATTTTCAAGGGTTTCTTGATGATATTTCAAAGAAATTTT
Found at i:4249599 original size:42 final size:41
Alignment explanation
Indices: 4249552--4249636 Score: 107
Period size: 41 Copynumber: 2.0 Consensus size: 41
4249542 GCCATCAGTC
* * * * *
4249552 AGTCTTTCGAGCATGATGCTTAAATCCTTCGAGTCATCTATA
1 AGTCTTTCGAACAAGATG-GTAAATCCTTCGAGCCATCCATA
*
4249594 AGTCTTTCGAACAAGATGGTAAGTCCTTCGAGCCATCCATA
1 AGTCTTTCGAACAAGATGGTAAATCCTTCGAGCCATCCATA
4249635 AG
1 AG
4249637 ACCTTCAGGC
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
41 21 0.57
42 16 0.43
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (41 bp):
AGTCTTTCGAACAAGATGGTAAATCCTTCGAGCCATCCATA
Found at i:4249636 original size:41 final size:42
Alignment explanation
Indices: 4249529--4249636 Score: 112
Period size: 42 Copynumber: 2.6 Consensus size: 42
4249519 TTCTTACTGA
* * * * *
4249529 GTAAGTCCTTTGGGCCAT-CAGTCAGTCTTTCGAGCATGATGC
1 GTAAGTCCTTCGAGCCATCCA-TAAGTCTTTCGAACAAGATGC
* * * *
4249571 TTAAATCCTTCGAGTCATCTATAAGTCTTTCGAACAAGATG-
1 GTAAGTCCTTCGAGCCATCCATAAGTCTTTCGAACAAGATGC
4249612 GTAAGTCCTTCGAGCCATCCATAAG
1 GTAAGTCCTTCGAGCCATCCATAAG
4249637 ACCTTCAGGC
Statistics
Matches: 52, Mismatches: 13, Indels: 3
0.76 0.19 0.04
Matches are distributed among these distances:
41 21 0.40
42 30 0.58
43 1 0.02
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (42 bp):
GTAAGTCCTTCGAGCCATCCATAAGTCTTTCGAACAAGATGC
Done.