Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008341.1 Hibiscus syriacus cultivar Beakdansim tig00111067_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: 1248125
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 6
Found at i:519725 original size:20 final size:18
Alignment explanation
Indices: 519640--519723 Score: 66
Period size: 20 Copynumber: 4.5 Consensus size: 18
519630 ATGTTATAAG
519640 ATATATAT-AATAAAAATA
1 ATATATATAAATAAAAA-A
519658 ATATAATATAAATAAAAAA
1 ATAT-ATATAAATAAAAAA
519677 GGA-ATATAGTAAATAAATAAA
1 --ATATATA-TAAATAAA-AAA
* * *
519698 A-AAATATAATTAAAAAT
1 ATATATATAAATAAAAAA
519715 ATATATATA
1 ATATATATA
519724 TAGAGGACGA
Statistics
Matches: 55, Mismatches: 4, Indels: 14
0.75 0.05 0.19
Matches are distributed among these distances:
17 3 0.05
18 17 0.31
19 13 0.24
20 18 0.33
21 4 0.07
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.30
Consensus pattern (18 bp):
ATATATATAAATAAAAAA
Found at i:521332 original size:110 final size:110
Alignment explanation
Indices: 521184--521384 Score: 305
Period size: 110 Copynumber: 1.8 Consensus size: 110
521174 TGGGAAATTA
* *
521184 TTTGTTGACAGCCAGCCGCCCCTTCGATGTGAAGTTGAGCTTGTGTTGTCTTGAGT-TCAATATC
1 TTTGTTGACAACCAGCCGCCCCTTCGATATGAAGTTGAGCTTGTGTTGTCTTGAGTCT-AATATC
*
521248 CTTCGCTGTGAAGTTAAAATTGACTCTGAATGAAACTGAAAAGTTG
65 CCTCGCTGTGAAGTTAAAATTGACTCTGAATGAAACTGAAAAGTTG
* * * *
521294 TTTGTTGACAATCAGTCGCCCCTTCGTTATGAATTTGAGCTTGTGTTGTCTTGAGTCTAATATCC
1 TTTGTTGACAACCAGCCGCCCCTTCGATATGAAGTTGAGCTTGTGTTGTCTTGAGTCTAATATCC
* *
521359 CTCGCTGTGAAGTTGAAATTGGCTCT
66 CTCGCTGTGAAGTTAAAATTGACTCT
521385 AAAGTTGGGA
Statistics
Matches: 81, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
110 80 0.99
111 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.23, T:0.36
Consensus pattern (110 bp):
TTTGTTGACAACCAGCCGCCCCTTCGATATGAAGTTGAGCTTGTGTTGTCTTGAGTCTAATATCC
CTCGCTGTGAAGTTAAAATTGACTCTGAATGAAACTGAAAAGTTG
Found at i:522194 original size:68 final size:65
Alignment explanation
Indices: 522104--522425 Score: 254
Period size: 65 Copynumber: 4.8 Consensus size: 65
522094 AAGATATCTG
* * * * **
522104 TTGTTTCATGAAAAACGGTCTCAAGGGAAACAAAATTTTGTTTTAAGGGAAATAAATTTGAAGAT
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAA-TTTGTTTTAAGGGAAATAAATTCAAAGA-
522169 TT
64 TT
522171 TGTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTT-AGGAGAAATAAATTCAAAGA
1 T-TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGG-GAAATAAATTCAAAGA
522235 TT
64 TT
* * * * * *
522237 TTGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAATTTGTTTCAAGAGAAACT--GTCTCAAGAG
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAA-TAAAT-TC-A-A-
522300 AGATAAAACT
61 AGAT-----T
* * * * * *** * * *
522310 TAGTTCCAAAAGAAACTGTCTCAAGGGAGACGAAATTTGTTTCAAATAAAACATATTCAAATATT
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAATAAATTCAAAGATT
* * * *
522375 TTGTTTTAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAA
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAA
522426 CTGTCTCAAG
Statistics
Matches: 207, Mismatches: 33, Indels: 32
0.76 0.12 0.12
Matches are distributed among these distances:
64 1 0.00
65 86 0.42
66 10 0.05
67 24 0.12
68 34 0.16
70 3 0.01
71 1 0.00
72 1 0.00
73 46 0.22
74 1 0.00
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.30
Consensus pattern (65 bp):
TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAATAAATTCAAAGATT
Found at i:522221 original size:36 final size:36
Alignment explanation
Indices: 522173--522563 Score: 215
Period size: 36 Copynumber: 11.4 Consensus size: 36
522163 GAAGATTTTG
*
522173 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* * **
522209 TGTTTTAGGAGAAA-----T--A-A-ATTCAAAGATTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAA-AT-T
* *
522238 TGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
*
522274 TGTTTCAAGAGAAACTGTCTCAAGAGAGATAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* * * * *
522311 AGTTCCAAAAGAAACTGTCTCAAGGGAGACGAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* * * *
522347 TGTTTCAA-ATAAAACATAT-TC-----A-A-ATATTT
1 TGTTTCAAGA-GAAAC-TGTCTCAAGAGAGACAAAATT
* *
522376 TGTTTTAAGGGAAACTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* **
522412 TGTTTCAAGGGAAACTGTCTCAAGAGAGATGAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* * * * *
522448 TATTTCAAGGGAAA-TGTTTTC-A-A-TG-----TTT
1 TGTTTCAAGAGAAACTG-TCTCAAGAGAGACAAAATT
* *
522476 ATGTTTCAAGAGAAACTGTCTCAAGGGAGGCAAAATTT
1 -TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* *
522514 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
** *
522550 CATTTCAAGGGAAA
1 TGTTTCAAGAGAAA
522564 TGTTTTCAAT
Statistics
Matches: 268, Mismatches: 52, Indels: 70
0.69 0.13 0.18
Matches are distributed among these distances:
27 5 0.02
28 6 0.02
29 44 0.16
30 4 0.01
31 2 0.01
32 1 0.00
33 1 0.00
34 3 0.01
35 5 0.02
36 126 0.47
37 65 0.24
38 6 0.02
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.29
Consensus pattern (36 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
Found at i:522347 original size:138 final size:138
Alignment explanation
Indices: 522182--522441 Score: 416
Period size: 138 Copynumber: 1.9 Consensus size: 138
522172 GTGTTTCAAG
* *
522182 AGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAGGAGAAATA-A-ATTCAAAGATTTTGTTTCA
1 AGAAACTGTCTCAAGGGAGACAAAATTTGTTTCA-AAGAAA-ACATATTCAAAGATTTTGTTTCA
*
522245 AGGGAAACTGTCTCAAGAGAGACGAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGATAAAACT
64 AGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGATAAAACT
522310 TAGTTCCAAA
129 TAGTTCCAAA
* * * *
522320 AGAAACTGTCTCAAGGGAGACGAAATTTGTTTCAAATAAAACATATTCAAATATTTTGTTTTAAG
1 AGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAAGAAAACATATTCAAAGATTTTGTTTCAAG
*
522385 GGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGAT
66 GGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGAT
522442 GAAATTTATT
Statistics
Matches: 112, Mismatches: 8, Indels: 4
0.90 0.06 0.03
Matches are distributed among these distances:
136 1 0.01
137 5 0.04
138 106 0.95
ACGTcount: A:0.40, C:0.12, G:0.20, T:0.28
Consensus pattern (138 bp):
AGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAAGAAAACATATTCAAAGATTTTGTTTCAAG
GGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGATAAAACTTA
GTTCCAAA
Found at i:522528 original size:37 final size:37
Alignment explanation
Indices: 522477--522639 Score: 132
Period size: 37 Copynumber: 4.6 Consensus size: 37
522467 TCAATGTTTA
* *
522477 TGTTTCAAGAGAAACTGTCTCAAGGGAGGCAAAATTT
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATTT
* *
522514 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA-TT
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATTT
** * *
522550 CATTTCAAGGGAAA-TGTTTTCAA---TG------TTT
1 TGTTTCAAGGGAAACTG-TCTCAAGGGAGACAAAATTT
* *
522578 ATGTTTCAAGAGAAACTGTCTCAAGGGAGATAAAATTT
1 -TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATTT
*
522616 TGTTTCAAGGGAAACTATCTCAAG
1 TGTTTCAAGGGAAACTGTCTCAAG
522640 CAAGATAAAA
Statistics
Matches: 97, Mismatches: 16, Indels: 26
0.70 0.12 0.19
Matches are distributed among these distances:
28 2 0.02
29 16 0.16
30 2 0.02
32 1 0.01
33 1 0.01
35 1 0.01
36 19 0.20
37 52 0.54
38 3 0.03
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.30
Consensus pattern (37 bp):
TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATTT
Found at i:522555 original size:102 final size:102
Alignment explanation
Indices: 522274--522639 Score: 475
Period size: 102 Copynumber: 3.6 Consensus size: 102
522264 AGACGAAATT
* * * * ** * *
522274 TGTTTCAAGAGAAACTGTCTCAAGAGAGATAAAACTTAGTTCCAAAAGAAACTGTCTCAAGGGAG
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAG
* *** ** * *
522339 ACGAAATTTGTTTCAAATAAAACATATTCAAATATTT-
66 ACGAAATTTATTTCAAGGGAAATGTTTTC-AATGTTTA
* * *
522376 TGTTTTAAGGGAAACTGTCTCAAGAGAGACAAAA-TTTGTTTCAAGGGAAACTGTCTCAAGAGAG
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAG
*
522440 ATGAAATTTATTTCAAGGGAAATGTTTTCAATGTTTA
66 ACGAAATTTATTTCAAGGGAAATGTTTTCAATGTTTA
* *
522477 TGTTTCAAGAGAAACTGTCTCAAGGGAGGCAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAG
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAG
* *
522542 ACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
66 ACGAAATTTATTTCAAGGGAAATGTTTTCAATGTTTA
* *
522579 TGTTTCAAGAGAAACTGTCTCAAGGGAGATAAAATTTTGTTTCAAGGGAAACTATCTCAAG
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAG
522640 CAAGATAAAA
Statistics
Matches: 235, Mismatches: 27, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
100 6 0.03
101 76 0.32
102 153 0.65
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.30
Consensus pattern (102 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAG
ACGAAATTTATTTCAAGGGAAATGTTTTCAATGTTTA
Found at i:522646 original size:37 final size:37
Alignment explanation
Indices: 522579--522650 Score: 108
Period size: 37 Copynumber: 1.9 Consensus size: 37
522569 TCAATGTTTA
* **
522579 TGTTTCAAGAGAAACTGTCTCAAGGGAGATAAAATTT
1 TGTTTCAAGAGAAACTATCTCAAGCAAGATAAAATTT
*
522616 TGTTTCAAGGGAAACTATCTCAAGCAAGATAAAAT
1 TGTTTCAAGAGAAACTATCTCAAGCAAGATAAAAT
522651 CTTCTTTTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.28
Consensus pattern (37 bp):
TGTTTCAAGAGAAACTATCTCAAGCAAGATAAAATTT
Found at i:524085 original size:69 final size:69
Alignment explanation
Indices: 523970--524107 Score: 213
Period size: 69 Copynumber: 2.0 Consensus size: 69
523960 TGTCTCTCTC
* * *
523970 TTGATGCTCTATGATCTTCAAGTGGAGTGATTCAGTGATTCAGAAATAATTGTGCTTGATCAGTC
1 TTGATGCTATATGATCTTCAAGTGAAGTGATTCAGTGATTCAGAAATAATTGTGCTTGATCAATC
524035 TCAT
66 TCAT
* * * *
524039 TTGATGCTATATGATCTTCGAGTGAAGTGGTTCAGTGATTCGGAAATGATTGTGCTTGATCAATC
1 TTGATGCTATATGATCTTCAAGTGAAGTGATTCAGTGATTCAGAAATAATTGTGCTTGATCAATC
524104 TCAT
66 TCAT
524108 AGTTTGAATC
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
69 62 1.00
ACGTcount: A:0.25, C:0.14, G:0.23, T:0.38
Consensus pattern (69 bp):
TTGATGCTATATGATCTTCAAGTGAAGTGATTCAGTGATTCAGAAATAATTGTGCTTGATCAATC
TCAT
Found at i:524223 original size:15 final size:15
Alignment explanation
Indices: 524199--524233 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
524189 GTTTTTTATC
524199 TTTTTATTTTCTCTT
1 TTTTTATTTTCTCTT
524214 TGTTTT-TTTTCTCTT
1 T-TTTTATTTTCTCTT
524229 TTTTT
1 TTTTT
524234 CTCTTTTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 4 0.21
15 11 0.58
16 4 0.21
ACGTcount: A:0.03, C:0.11, G:0.03, T:0.83
Consensus pattern (15 bp):
TTTTTATTTTCTCTT
Found at i:524244 original size:27 final size:26
Alignment explanation
Indices: 524179--524239 Score: 90
Period size: 26 Copynumber: 2.4 Consensus size: 26
524169 TTTTTCTTCA
524179 ATTTTC-CTTTGTTTTTTATCTTTTT
1 ATTTTCTCTTTGTTTTTTATCTTTTT
* *
524204 ATTTTCTCTTTGTTTTTTTTCTCTTT
1 ATTTTCTCTTTGTTTTTTATCTTTTT
524230 -TTTTCTCTTT
1 ATTTTCTCTTT
524240 TTGTTCTGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
25 16 0.48
26 17 0.52
ACGTcount: A:0.05, C:0.15, G:0.03, T:0.77
Consensus pattern (26 bp):
ATTTTCTCTTTGTTTTTTATCTTTTT
Found at i:527383 original size:19 final size:19
Alignment explanation
Indices: 527361--527402 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
527351 AAAACACGTA
527361 AAAAATAATA-AAAATAAAT
1 AAAAATAA-ACAAAATAAAT
*
527380 AAAAATAAACAAAATGAAT
1 AAAAATAAACAAAATAAAT
527399 AAAA
1 AAAA
527403 TGTTAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 1 0.05
19 20 0.95
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (19 bp):
AAAAATAAACAAAATAAAT
Found at i:527404 original size:9 final size:10
Alignment explanation
Indices: 527361--527402 Score: 52
Period size: 10 Copynumber: 4.4 Consensus size: 10
527351 AAAACACGTA
527361 AAAAAT-AAT
1 AAAAATAAAT
527370 AAAAATAAAT
1 AAAAATAAAT
527380 AAAAATAAA-
1 AAAAATAAAT
* *
527389 CAAAATGAAT
1 AAAAATAAAT
527399 AAAA
1 AAAA
527403 TGTTAAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
9 13 0.46
10 15 0.54
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (10 bp):
AAAAATAAAT
Found at i:527478 original size:18 final size:17
Alignment explanation
Indices: 527446--527492 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 17
527436 TATTAATGGA
527446 GTAAAAAAATAAAAAAG
1 GTAAAAAAATAAAAAAG
*
527463 GTAAAAGAAATTAAAAAG
1 GTAAAA-AAATAAAAAAG
527481 G-AATAAAAATAA
1 GTAA-AAAAATAA
527493 TGTGTACATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 13 0.50
18 13 0.50
ACGTcount: A:0.72, C:0.00, G:0.13, T:0.15
Consensus pattern (17 bp):
GTAAAAAAATAAAAAAG
Found at i:527679 original size:40 final size:38
Alignment explanation
Indices: 527635--527723 Score: 117
Period size: 38 Copynumber: 2.3 Consensus size: 38
527625 TATAATATAT
527635 ATATATATATAAATAAA-TAAAAAAATAGAATATTAAGAAA
1 ATATATATATAAA-AAAGT--AAAAATAGAATATTAAGAAA
* *
527675 ATATATATATAAAAAAGTATAAATATAATATTAAGAAA
1 ATATATATATAAAAAAGTAAAAATAGAATATTAAGAAA
*
527713 AAATATATATA
1 ATATATATATA
527724 CATAGTAAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
38 28 0.62
39 3 0.07
40 14 0.31
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.30
Consensus pattern (38 bp):
ATATATATATAAAAAAGTAAAAATAGAATATTAAGAAA
Found at i:527695 original size:16 final size:15
Alignment explanation
Indices: 527588--527702 Score: 65
Period size: 16 Copynumber: 7.2 Consensus size: 15
527578 TACATGATAT
*
527588 TAAAAAAAAT-AATA
1 TAAAAAATATAAATA
*
527602 GAAAAAATA-AAATA
1 TAAAAAATATAAATA
*
527616 AAGTAAAAATATAATATA
1 TA--AAAAATATAA-ATA
* *
527634 TATATATATATAAATAAA
1 TA-AAAAATATAAAT--A
527652 TAAAAAA-ATAGAATA
1 TAAAAAATATA-AATA
*
527667 TTAAGAAAATATATATA
1 -TAA-AAAATATAAATA
527684 TAAAAAAGTATAAATA
1 TAAAAAA-TATAAATA
527700 TAA
1 TAA
527703 TATTAAGAAA
Statistics
Matches: 79, Mismatches: 10, Indels: 22
0.71 0.09 0.20
Matches are distributed among these distances:
14 12 0.15
15 5 0.06
16 28 0.35
17 24 0.30
18 10 0.13
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (15 bp):
TAAAAAATATAAATA
Found at i:527803 original size:23 final size:24
Alignment explanation
Indices: 527777--527837 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 24
527767 ATGTTATAAG
*
527777 ATATATATAATAAAAA-TAATATA
1 ATATATATAATAAAAAGGAATATA
*
527800 ATATAAATAA-AAAAAGGAATATA
1 ATATATATAATAAAAAGGAATATA
* *
527823 GTAAATA-AATAAAAA
1 ATATATATAATAAAAA
527838 CATAATTAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
22 7 0.23
23 24 0.77
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (24 bp):
ATATATATAATAAAAAGGAATATA
Found at i:531195 original size:16 final size:16
Alignment explanation
Indices: 531167--531201 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
531157 CCTAATATAC
531167 TTTTATTTCAATTACAT
1 TTTTATTTCAATTA-AT
531184 TTTTATTT-AATTAAT
1 TTTTATTTCAATTAAT
531199 TTT
1 TTT
531202 AGGGACCAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.28
16 5 0.28
17 8 0.44
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTTATTTCAATTAAT
Found at i:532918 original size:19 final size:19
Alignment explanation
Indices: 532849--532908 Score: 120
Period size: 19 Copynumber: 3.2 Consensus size: 19
532839 TACTTTCACA
532849 TTTCATATTCATAACTCCT
1 TTTCATATTCATAACTCCT
532868 TTTCATATTCATAACTCCT
1 TTTCATATTCATAACTCCT
532887 TTTCATATTCATAACTCCT
1 TTTCATATTCATAACTCCT
532906 TTT
1 TTT
532909 TTAATTCATA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 41 1.00
ACGTcount: A:0.25, C:0.25, G:0.00, T:0.50
Consensus pattern (19 bp):
TTTCATATTCATAACTCCT
Found at i:533021 original size:34 final size:34
Alignment explanation
Indices: 532973--533064 Score: 112
Period size: 34 Copynumber: 2.7 Consensus size: 34
532963 GAGTGTGCAC
* ** *
532973 AATAAGCACTCCAGGTGTTATCATCAGAAACATA
1 AATATGCACTCCAGGTGCAATCATCAGAAACAAA
* *
533007 AATATGCACTCCAGGTGCAATCATTAGATACAAA
1 AATATGCACTCCAGGTGCAATCATCAGAAACAAA
* *
533041 AAAATGCATTCCAGGTGCAATCAT
1 AATATGCACTCCAGGTGCAATCAT
533065 ATAATGTACA
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 50 1.00
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.24
Consensus pattern (34 bp):
AATATGCACTCCAGGTGCAATCATCAGAAACAAA
Found at i:536039 original size:16 final size:16
Alignment explanation
Indices: 536018--536048 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
536008 AATTCAGACA
536018 GTTGACTTTAACCAAG
1 GTTGACTTTAACCAAG
*
536034 GTTGACTTTGACCAA
1 GTTGACTTTAACCAA
536049 AAAGTTAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.32
Consensus pattern (16 bp):
GTTGACTTTAACCAAG
Found at i:540048 original size:14 final size:14
Alignment explanation
Indices: 540013--540049 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
540003 TGAAAGAGTA
540013 AAGAGTAAA-TAAAG
1 AAGA-TAAATTAAAG
540027 AA-ATAAATTAAAG
1 AAGATAAATTAAAG
540040 AAGATAAATT
1 AAGATAAATT
540050 GAGATGAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 4 0.19
13 8 0.38
14 9 0.43
ACGTcount: A:0.65, C:0.00, G:0.14, T:0.22
Consensus pattern (14 bp):
AAGATAAATTAAAG
Found at i:541684 original size:38 final size:38
Alignment explanation
Indices: 541640--541722 Score: 96
Period size: 38 Copynumber: 2.2 Consensus size: 38
541630 GAGATGTATC
* * *
541640 CTAGAAAACTCAATCTTGTCATGCTTAAGATTGTTT-T
1 CTAGAAAACTCAATCTCGTCATCCTCAAGATTGTTTCT
* * *
541677 CTGAGAAACCTCATTCTCGTCCTCCTCAAGATTGTTTCT
1 CT-AGAAAACTCAATCTCGTCATCCTCAAGATTGTTTCT
541716 CTAGAAA
1 CTAGAAA
541723 TCAACTTTGT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
37 2 0.05
38 33 0.87
39 3 0.08
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.36
Consensus pattern (38 bp):
CTAGAAAACTCAATCTCGTCATCCTCAAGATTGTTTCT
Found at i:543397 original size:19 final size:19
Alignment explanation
Indices: 543373--543411 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
543363 ACAAACAAAG
* *
543373 ACAAAAATTAAATAATTAA
1 ACAAAAATAAAATAAATAA
543392 ACAAAAATAAAATAAATAA
1 ACAAAAATAAAATAAATAA
543411 A
1 A
543412 TAAATAGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (19 bp):
ACAAAAATAAAATAAATAA
Found at i:544837 original size:39 final size:39
Alignment explanation
Indices: 544805--545034 Score: 358
Period size: 39 Copynumber: 5.9 Consensus size: 39
544795 TTTCAACAAC
*
544805 TTTTCAAAAACTATATATTATATATATGTTTTCAAAATA
1 TTTTCAAAAACTATATATTATATATATGTTTTCAAAATG
** * * *
544844 TTTTTGAAAACTATATATTATATACATATTTTCAAAATA
1 TTTTCAAAAACTATATATTATATATATGTTTTCAAAATG
*
544883 TTTTC-AAAACTATATATTATATATATGTTTACAAAATG
1 TTTTCAAAAACTATATATTATATATATGTTTTCAAAATG
544921 TTTTCAAAAACTATATATTATATATA--TTTTCAAAATG
1 TTTTCAAAAACTATATATTATATATATGTTTTCAAAATG
*
544958 TTTTCAAAAACTATATATTATATATATGTTATCCAAAATG
1 TTTTCAAAAACTATATATTATATATATGTT-TTCAAAATG
544998 TTTTCAAAAACTATATATTATATATATGTTTTCAAAA
1 TTTTCAAAAACTATATATTATATATATGTTTTCAAAA
545035 ACTATATACT
Statistics
Matches: 175, Mismatches: 12, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
37 36 0.21
38 34 0.19
39 67 0.38
40 38 0.22
ACGTcount: A:0.43, C:0.08, G:0.03, T:0.45
Consensus pattern (39 bp):
TTTTCAAAAACTATATATTATATATATGTTTTCAAAATG
Found at i:544975 original size:116 final size:117
Alignment explanation
Indices: 544805--545034 Score: 358
Period size: 116 Copynumber: 2.0 Consensus size: 117
544795 TTTCAACAAC
**
544805 TTTTCAAAAACTATATATTATATATATGTTTTCAAAATATTTTTGAAAACTATATATTATATACA
1 TTTTCAAAAACTATATATTATATATA-GTTTTCAAAATATTTTCAAAAACTATATATTATATACA
*
544870 TATT-TTCAAAATATTTTC-AAAACTATATATTATATATATGTTTACAAAATG
65 TATTATCCAAAATATTTTCAAAAACTATATATTATATATATGTTTACAAAATG
* *
544921 TTTTCAAAAACTATATATTATATATA-TTTTCAAAATGTTTTCAAAAACTATATATTATATATAT
1 TTTTCAAAAACTATATATTATATATAGTTTTCAAAATATTTTCAAAAACTATATATTATATACAT
* * *
544985 GTTATCCAAAATGTTTTCAAAAACTATATATTATATATATGTTTTCAAAA
66 ATTATCCAAAATATTTTCAAAAACTATATATTATATATATGTTTACAAAA
545035 ACTATATACT
Statistics
Matches: 104, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
114 36 0.35
115 12 0.12
116 56 0.54
ACGTcount: A:0.43, C:0.08, G:0.03, T:0.45
Consensus pattern (117 bp):
TTTTCAAAAACTATATATTATATATAGTTTTCAAAATATTTTCAAAAACTATATATTATATACAT
ATTATCCAAAATATTTTCAAAAACTATATATTATATATATGTTTACAAAATG
Found at i:545031 original size:28 final size:28
Alignment explanation
Indices: 544995--545078 Score: 129
Period size: 28 Copynumber: 3.1 Consensus size: 28
544985 GTTATCCAAA
544995 ATGTTTTCAAAAACTATATATTATATAT
1 ATGTTTTCAAAAACTATATATTATATAT
*
545023 ATGTTTTCAAAAACTATATA--CTATAT
1 ATGTTTTCAAAAACTATATATTATATAT
545049 ATGTTTTCAAAAACTATAT-TATATATAT
1 ATGTTTTCAAAAACTATATAT-TATATAT
545077 AT
1 AT
545079 TTAAAAATGA
Statistics
Matches: 51, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
26 24 0.47
28 27 0.53
ACGTcount: A:0.43, C:0.08, G:0.04, T:0.45
Consensus pattern (28 bp):
ATGTTTTCAAAAACTATATATTATATAT
Found at i:545047 original size:26 final size:25
Alignment explanation
Indices: 544995--545102 Score: 119
Period size: 26 Copynumber: 4.1 Consensus size: 25
544985 GTTATCCAAA
544995 ATGTTTTCAAAAACTATATATTATATAT
1 ATGTTTTCAAAAAC--TATA-TATATAT
545023 ATGTTTTCAAAAACTATATACTATAT
1 ATGTTTTCAAAAACTATATA-TATAT
545049 ATGTTTTCAAAAACTATATTATATAT
1 ATGTTTTCAAAAACTATA-TATATAT
* * *
545075 AT-ATTTAAAAATGATTATATATATAT
1 ATGTTTTCAAAA--ACTATATATATAT
545101 AT
1 AT
545103 ATATATATAT
Statistics
Matches: 73, Mismatches: 3, Indels: 10
0.85 0.03 0.12
Matches are distributed among these distances:
25 9 0.12
26 43 0.59
27 7 0.10
28 14 0.19
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.45
Consensus pattern (25 bp):
ATGTTTTCAAAAACTATATATATAT
Found at i:545050 original size:77 final size:76
Alignment explanation
Indices: 544806--545035 Score: 313
Period size: 77 Copynumber: 3.0 Consensus size: 76
544796 TTCAACAACT
* * ** *
544806 TTTCAAAAACTATATATTATATATATGTTTTCAAAATATTTTTGAAAACTATATATTATATACAT
1 TTTC-AAAACTATATATTATATATATGTTTACAAAATGTTTTCAAAAACTATATATTATATATAT
544871 ATTTTC-AAAATA
65 -TTTTCAAAAATA
544883 TTTTCAAAACTATATATTATATATATGTTTACAAAATGTTTTCAAAAACTATATATTATATATA-
1 -TTTCAAAACTATATATTATATATATGTTTACAAAATGTTTTCAAAAACTATATATTATATATAT
*
544947 TTTTC-AAAATGT
65 TTTTCAAAAAT-A
*
544959 TTTCAAAAACTATATATTATATATATGTTATCCAAAATGTTTTCAAAAACTATATATTATATATA
1 TTTC-AAAACTATATATTATATATATGTT-TACAAAATGTTTTCAAAAACTATATATTATATATA
545024 TGTTTTCAAAAA
64 T-TTTTCAAAAA
545036 CTATATACTA
Statistics
Matches: 139, Mismatches: 7, Indels: 10
0.89 0.04 0.06
Matches are distributed among these distances:
75 14 0.10
76 24 0.17
77 88 0.63
78 4 0.03
79 5 0.04
80 4 0.03
ACGTcount: A:0.43, C:0.08, G:0.03, T:0.45
Consensus pattern (76 bp):
TTTCAAAACTATATATTATATATATGTTTACAAAATGTTTTCAAAAACTATATATTATATATATT
TTTCAAAAATA
Found at i:545075 original size:2 final size:2
Alignment explanation
Indices: 545063--545133 Score: 92
Period size: 2 Copynumber: 36.0 Consensus size: 2
545053 TTTCAAAAAC
* * *
545063 TA TA T- TA TA TA TA TA TT TA AA AA TGA T- TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA
545104 TA 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
545134 AATAGAACAC
Statistics
Matches: 62, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
1 2 0.03
2 58 0.94
3 2 0.03
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (2 bp):
TA
Found at i:545084 original size:24 final size:24
Alignment explanation
Indices: 545010--545124 Score: 94
Period size: 26 Copynumber: 4.7 Consensus size: 24
545000 TTCAAAAACT
*
545010 ATATATTATATATATGTTTTCAAAA
1 ATATATTATATATAT-ATTTCAAAA
*
545035 ACTATA-TACTATATATGTTTTCAAAA
1 A-TATATTA-TATATAT-ATTTCAAAA
545061 ACTATATTATATATATATTT-AAAA
1 A-TATATTATATATATATTTCAAAA
* * * *
545085 AT-GATTATATATATATAT-ATAT
1 ATATATTATATATATATTTCAAAA
545107 ATATATATATATATATAT
1 ATATAT-TATATATATAT
545125 ATATATATAA
Statistics
Matches: 79, Mismatches: 6, Indels: 11
0.82 0.06 0.11
Matches are distributed among these distances:
22 18 0.23
23 3 0.04
24 16 0.20
25 6 0.08
26 34 0.43
27 2 0.03
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.47
Consensus pattern (24 bp):
ATATATTATATATATATTTCAAAA
Found at i:553839 original size:11 final size:12
Alignment explanation
Indices: 553822--553852 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
553812 ATGCTCCATC
553822 GAAAAAAAAGAA
1 GAAAAAAAAGAA
553834 -AAAAAAAAGAA
1 GAAAAAAAAGAA
553845 GAAAAAAA
1 GAAAAAAA
553853 TGTTGTTCGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 11 0.61
12 7 0.39
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (12 bp):
GAAAAAAAAGAA
Found at i:553846 original size:14 final size:13
Alignment explanation
Indices: 553823--553852 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
553813 TGCTCCATCG
553823 AAAAAAAAGAAAA
1 AAAAAAAAGAAAA
553836 AAAAAAGAAGAAAA
1 AAAAAA-AAGAAAA
553850 AAA
1 AAA
553853 TGTTGTTCGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (13 bp):
AAAAAAAAGAAAA
Found at i:565343 original size:90 final size:89
Alignment explanation
Indices: 565188--565353 Score: 296
Period size: 90 Copynumber: 1.9 Consensus size: 89
565178 CCTAACACAC
*
565188 CCTTTTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATA
1 CCTTTTATAGCCAAGTTACCCTAATCATACTAGGGTTTTATTATTTCAAATTAATTAAATCTATA
565253 TTTAATTAATTAGAATTTAATAAT
66 TTTAATTAATTAGAATTTAATAAT
* *
565277 CCTTTTATATCTAAGTTACCCTAATCATACTAGGGATTTTATTATTTCAAATTAATTAAATCTAT
1 CCTTTTATAGCCAAGTTACCCTAATCATACTAGGG-TTTTATTATTTCAAATTAATTAAATCTAT
565342 ATTTAATTAATT
65 ATTTAATTAATT
565354 GAAATTACAT
Statistics
Matches: 73, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
89 32 0.44
90 41 0.56
ACGTcount: A:0.36, C:0.12, G:0.06, T:0.46
Consensus pattern (89 bp):
CCTTTTATAGCCAAGTTACCCTAATCATACTAGGGTTTTATTATTTCAAATTAATTAAATCTATA
TTTAATTAATTAGAATTTAATAAT
Found at i:573551 original size:16 final size:16
Alignment explanation
Indices: 573530--573560 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
573520 GAAGGCGACA
*
573530 CTTTCACTTCCACTTG
1 CTTTCACCTCCACTTG
573546 CTTTCACCTCCACTT
1 CTTTCACCTCCACTT
573561 AAGAAAAGGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.13, C:0.42, G:0.03, T:0.42
Consensus pattern (16 bp):
CTTTCACCTCCACTTG
Found at i:574414 original size:11 final size:11
Alignment explanation
Indices: 574398--574428 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
574388 ATTAAATAAT
574398 TAAAATAAAAA
1 TAAAATAAAAA
574409 TAAAATAAAAA
1 TAAAATAAAAA
574420 TAAAATAAA
1 TAAAATAAA
574429 TAAATAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (11 bp):
TAAAATAAAAA
Found at i:574424 original size:16 final size:15
Alignment explanation
Indices: 574384--574439 Score: 60
Period size: 15 Copynumber: 3.6 Consensus size: 15
574374 CAAAAAAAAC
*
574384 AAAAATTAAAT-AAT
1 AAAAATAAAATAAAT
*
574398 TAAAATAAAAATAAAAT
1 AAAAAT-AAAAT-AAAT
574415 AAAAATAAAATAAAT
1 AAAAATAAAATAAAT
574430 AAATAATAAA
1 AAA-AATAAA
574440 TAACAAATGT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
14 5 0.14
15 11 0.31
16 11 0.31
17 8 0.23
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
AAAAATAAAATAAAT
Found at i:574426 original size:31 final size:30
Alignment explanation
Indices: 574375--574442 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 30
574365 ATGTATAAAC
* *
574375 AAAA-AAAACAAAAATTAAATAATTAAAATA
1 AAAATAAAACAAAAATAAAATAAAT-AAATA
*
574405 AAAATAAAATAAAAATAAAATAAATAAATA
1 AAAATAAAACAAAAATAAAATAAATAAATA
574435 ATAAATAA
1 A-AAATAA
574443 CAAATGTTTG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
30 10 0.30
31 23 0.70
ACGTcount: A:0.78, C:0.01, G:0.00, T:0.21
Consensus pattern (30 bp):
AAAATAAAACAAAAATAAAATAAATAAATA
Found at i:574429 original size:20 final size:20
Alignment explanation
Indices: 574379--574442 Score: 58
Period size: 20 Copynumber: 3.1 Consensus size: 20
574369 ATAAACAAAA
* * *
574379 AAAACAAAAATTAAATAATT
1 AAAATAAAAATAAAATAAAT
574399 AAAATAAAAATAAAATAAAAAT
1 AAAATAAAAATAAAAT--AAAT
*
574421 AAAATAAATAA-ATAATAAAT
1 AAAATAAA-AATAAAATAAAT
574441 AA
1 AA
574443 CAAATGTTTG
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
20 20 0.54
22 15 0.41
23 2 0.05
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.22
Consensus pattern (20 bp):
AAAATAAAAATAAAATAAAT
Found at i:574437 original size:11 final size:10
Alignment explanation
Indices: 574369--574442 Score: 55
Period size: 9 Copynumber: 7.4 Consensus size: 10
574359 ATGATTATGT
*
574369 ATAAACAAAA
1 ATAAATAAAA
*
574379 A-AAACAAAA
1 ATAAATAAAA
**
574388 ATTAAATAATT
1 A-TAAATAAAA
574399 A-AAATAAAA
1 ATAAATAAAA
574408 ATAAAATAAAA
1 AT-AAATAAAA
*
574419 ATAAA-ATAA
1 ATAAATAAAA
574428 ATAAATAATAA
1 ATAAATAA-AA
574439 ATAA
1 ATAA
574443 CAAATGTTTG
Statistics
Matches: 51, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
9 24 0.47
10 5 0.10
11 22 0.43
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.20
Consensus pattern (10 bp):
ATAAATAAAA
Found at i:575692 original size:9 final size:9
Alignment explanation
Indices: 575678--575715 Score: 76
Period size: 9 Copynumber: 4.2 Consensus size: 9
575668 CAAATAACAA
575678 AAAATAAAT
1 AAAATAAAT
575687 AAAATAAAT
1 AAAATAAAT
575696 AAAATAAAT
1 AAAATAAAT
575705 AAAATAAAT
1 AAAATAAAT
575714 AA
1 AA
575716 TAAACCATAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (9 bp):
AAAATAAAT
Found at i:575816 original size:28 final size:27
Alignment explanation
Indices: 575754--575822 Score: 79
Period size: 28 Copynumber: 2.6 Consensus size: 27
575744 TATACATATA
*
575754 AATAT-TTTT-AAAAACTATATATTTT
1 AATATGTTTTCAAAAACTATATATTAT
* *
575779 CAACAAGTTTTCAAAAACTATATATTAT
1 -AATATGTTTTCAAAAACTATATATTAT
575807 ATATATGTTTTCAAAA
1 A-ATATGTTTTCAAAA
575823 TGTTTTAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
26 3 0.09
27 5 0.14
28 27 0.77
ACGTcount: A:0.45, C:0.09, G:0.03, T:0.43
Consensus pattern (27 bp):
AATATGTTTTCAAAAACTATATATTAT
Found at i:575819 original size:39 final size:39
Alignment explanation
Indices: 575769--575975 Score: 273
Period size: 39 Copynumber: 5.4 Consensus size: 39
575759 TTTTAAAAAC
*
575769 TATATATTTTCAACAA-GTTTTCAAAAACTATATATTATA
1 TATATGTTTTCAA-AATGTTTTCAAAAACTATATATTATA
*
575808 TATATGTTTTCAAAATGTTTTAAAAAAACTATATATTATA
1 TATATGTTTTCAAAATGTTTT-CAAAAACTATATATTATA
* *
575848 TATATGTTTTCAAAATG-TTTAAAAAATATATATATTATA
1 TATATGTTTTCAAAATGTTTTCAAAAA-CTATATATTATA
*
575887 TATATGTTTTCAAAATATTTTCAAAAACTATATA-T-TA
1 TATATGTTTTCAAAATGTTTTCAAAAACTATATATTATA
* *
575924 TATGTGTTTTCAAAATGTTTTCCAAAAC--TATATTATA
1 TATATGTTTTCAAAATGTTTTCAAAAACTATATATTATA
*
575961 TATATTTTTTCAAAA
1 TATATGTTTTCAAAA
575976 ATGATTTTAT
Statistics
Matches: 151, Mismatches: 11, Indels: 14
0.86 0.06 0.08
Matches are distributed among these distances:
35 4 0.03
36 1 0.01
37 42 0.28
38 9 0.06
39 53 0.35
40 42 0.28
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (39 bp):
TATATGTTTTCAAAATGTTTTCAAAAACTATATATTATA
Found at i:575991 original size:35 final size:35
Alignment explanation
Indices: 575798--575998 Score: 126
Period size: 37 Copynumber: 5.4 Consensus size: 35
575788 TTCAAAAACT
* *
575798 ATATATTATATATATGTTTTCAAAATG-TTTTAAAAAAA
1 ATATATTATATATATTTTTTCAAAATGATTTT----CAA
* **
575836 CTATATATTATATATATGTTTTCAAAATG-TTTAAAAA
1 --ATATATTATATATATTTTTTCAAAATGATTT-TCAA
575873 ATATATATATTATATATATGTTTTCAAAAT-ATTTTCAA
1 ATATAT-TA-TATATAT-T-TTTTCAAAATGATTTTCAA
*
575911 AAACTA-TATATTATATGTGTTTTCAAAATG-TTTTCCAAA
1 ATA-TATTATA-TATAT-T-TTTTCAAAATGATTTT-C-AA
*
575950 ACTATATTATATATATTTTTTCAAAAATGATTTT-AT
1 A-TATATTATATATATTTTTTC-AAAATGATTTTCAA
575986 ATATATTATATAT
1 ATATATTATATAT
575999 TAAATAGAAC
Statistics
Matches: 138, Mismatches: 8, Indels: 35
0.76 0.04 0.19
Matches are distributed among these distances:
35 18 0.13
36 6 0.04
37 38 0.28
38 12 0.09
39 29 0.21
40 35 0.25
ACGTcount: A:0.42, C:0.05, G:0.04, T:0.48
Consensus pattern (35 bp):
ATATATTATATATATTTTTTCAAAATGATTTTCAA
Found at i:578521 original size:26 final size:24
Alignment explanation
Indices: 578487--578754 Score: 83
Period size: 26 Copynumber: 11.5 Consensus size: 24
578477 GCCTTAATGT
* *
578487 ATCCGTTCATGCATTTTAGTTATGAC
1 ATCCTTTCATGCA-TTTAATTATG-C
*
578513 ATCCTTTCATGC-TTT-A--GTGC
1 ATCCTTTCATGCATTTAATTATGC
*
578533 ATCCGTTCATGCACTTTAATTATGGC
1 ATCCTTTCATGCA-TTTAATTAT-GC
* *
578559 ATCCTTTCACGC-CTT-A--ATGC
1 ATCCTTTCATGCATTTAATTATGC
*
578579 ATCCATTCATGCATTTTAATTATGGC
1 ATCCTTTCATGCA-TTTAATTAT-GC
* * **
578605 ATCCTTTCATTC-CTT-A--GGGC
1 ATCCTTTCATGCATTTAATTATGC
*
578625 ATCCGTTT-ATGCACTTTAGTTATGGC
1 ATCC-TTTCATGCA-TTTAATTAT-GC
* *
578651 ATCCTTTTATGC-CTT-A--ATGC
1 ATCCTTTCATGCATTTAATTATGC
* * *
578671 ATCCGTTCATGCATTTTACTTAGGGC
1 ATCCTTTCATGCA-TTTAATTA-TGC
* *
578697 ATCCTTTCATGC-CTT-AGTA--C
1 ATCCTTTCATGCATTTAATTATGC
* *
578717 ATCCGTTCATGCACTTTAATTAAGGC
1 ATCCTTTCATGCA-TTTAATT-ATGC
578743 ATCCTTTCATGC
1 ATCCTTTCATGC
578755 CTTAGTAATA
Statistics
Matches: 174, Mismatches: 36, Indels: 64
0.64 0.13 0.23
Matches are distributed among these distances:
20 57 0.33
21 9 0.05
22 11 0.06
23 8 0.05
24 12 0.07
25 7 0.04
26 70 0.40
ACGTcount: A:0.21, C:0.25, G:0.14, T:0.40
Consensus pattern (24 bp):
ATCCTTTCATGCATTTAATTATGC
Found at i:578648 original size:138 final size:138
Alignment explanation
Indices: 578425--578759 Score: 454
Period size: 138 Copynumber: 2.4 Consensus size: 138
578415 TATGACCACT
* * * * * ** *
578425 TTTCATGCCTTAATACATCCATTCATACATTTCAGTTATGTCATCCTTTTATGCCTTAATGTATC
1 TTTCATGCCTTAATACATCCATTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAGGGCATC
* * *
578490 CGTTCATGCATTTTAGTTATGACATCCTTTCATGCTTTAGTGCATCCGTTCATGCACTTTAATTA
66 CGTTCATGCACTTTAGTTATGACATCCTTTCATGCCTTAATGCATCCGTTCATGCACTTTAATTA
*
578555 TGGCATCC
131 GGGCATCC
* * *
578563 TTTCACGCCTTAATGCATCCATTCATGCATTTTAATTATGGCATCCTTTCATTCCTTAGGGCATC
1 TTTCATGCCTTAATACATCCATTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAGGGCATC
* * * * *
578628 CGTTTATGCACTTTAGTTATGGCATCCTTTTATGCCTTAATGCATCCGTTCATGCATTTTACTTA
66 CGTTCATGCACTTTAGTTATGACATCCTTTCATGCCTTAATGCATCCGTTCATGCACTTTAATTA
578693 GGGCATCC
131 GGGCATCC
* * * *
578701 TTTCATGCCTTAGTACATCCGTTCATGCACTTTAATTAAGGCATCCTTTCATGCCTTAG
1 TTTCATGCCTTAATACATCCATTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAG
578760 TAATAACATA
Statistics
Matches: 170, Mismatches: 27, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
138 170 1.00
ACGTcount: A:0.21, C:0.24, G:0.13, T:0.41
Consensus pattern (138 bp):
TTTCATGCCTTAATACATCCATTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAGGGCATC
CGTTCATGCACTTTAGTTATGACATCCTTTCATGCCTTAATGCATCCGTTCATGCACTTTAATTA
GGGCATCC
Found at i:578761 original size:46 final size:46
Alignment explanation
Indices: 578425--578758 Score: 409
Period size: 46 Copynumber: 7.3 Consensus size: 46
578415 TATGACCACT
* * * * *
578425 TTTCATGCCTTAATACATCCATTCATACA-TTTCAGTTATGTCATCC
1 TTTCATGCCTTAATGCATCCGTTCATGCACTTT-AATTATGGCATCC
* * * * *
578471 TTTTATGCCTTAATGTATCCGTTCATGCATTTTAGTTATGACATCC
1 TTTCATGCCTTAATGCATCCGTTCATGCACTTTAATTATGGCATCC
* *
578517 TTTCATGCTTTAGTGCATCCGTTCATGCACTTTAATTATGGCATCC
1 TTTCATGCCTTAATGCATCCGTTCATGCACTTTAATTATGGCATCC
* * *
578563 TTTCACGCCTTAATGCATCCATTCATGCATTTTAATTATGGCATCC
1 TTTCATGCCTTAATGCATCCGTTCATGCACTTTAATTATGGCATCC
* ** * *
578609 TTTCATTCCTTAGGGCATCCGTTTATGCACTTTAGTTATGGCATCC
1 TTTCATGCCTTAATGCATCCGTTCATGCACTTTAATTATGGCATCC
* * * *
578655 TTTTATGCCTTAATGCATCCGTTCATGCATTTTACTTAGGGCATCC
1 TTTCATGCCTTAATGCATCCGTTCATGCACTTTAATTATGGCATCC
* * *
578701 TTTCATGCCTTAGTACATCCGTTCATGCACTTTAATTAAGGCATCC
1 TTTCATGCCTTAATGCATCCGTTCATGCACTTTAATTATGGCATCC
578747 TTTCATGCCTTA
1 TTTCATGCCTTA
578759 GTAATAACAT
Statistics
Matches: 247, Mismatches: 40, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
46 244 0.99
47 3 0.01
ACGTcount: A:0.22, C:0.24, G:0.13, T:0.41
Consensus pattern (46 bp):
TTTCATGCCTTAATGCATCCGTTCATGCACTTTAATTATGGCATCC
Found at i:591024 original size:28 final size:26
Alignment explanation
Indices: 590992--591046 Score: 71
Period size: 23 Copynumber: 2.2 Consensus size: 26
590982 ATTTTACTCG
590992 ATTTTTATTCGATTCAAGCATGAAATCA
1 ATTTTT-TT-GATTCAAGCATGAAATCA
591020 A---TTTTGATTCAAGCATGAAATCA
1 ATTTTTTTGATTCAAGCATGAAATCA
591043 ATTT
1 ATTT
591047 CGATTCAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
23 19 0.79
24 2 0.08
25 2 0.08
28 1 0.04
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (26 bp):
ATTTTTTTGATTCAAGCATGAAATCA
Found at i:591032 original size:23 final size:23
Alignment explanation
Indices: 590999--591054 Score: 103
Period size: 23 Copynumber: 2.4 Consensus size: 23
590989 TCGATTTTTA
590999 TTCGATTCAAGCATGAAATCAAT
1 TTCGATTCAAGCATGAAATCAAT
*
591022 TTTGATTCAAGCATGAAATCAAT
1 TTCGATTCAAGCATGAAATCAAT
591045 TTCGATTCAA
1 TTCGATTCAA
591055 ACTTATAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (23 bp):
TTCGATTCAAGCATGAAATCAAT
Found at i:604747 original size:46 final size:46
Alignment explanation
Indices: 604680--604772 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
604670 AATAGCTCGT
604680 ACAATGGTTACGCCACCTTAGAGAAGTCCTTGATGAATCTACGGTA
1 ACAATGGTTACGCCACCTTAGAGAAGTCCTTGATGAATCTACGGTA
604726 ACAATGGTTACGCCACCTTAGAGAAGTCCTTGATGAATCTACGGTA
1 ACAATGGTTACGCCACCTTAGAGAAGTCCTTGATGAATCTACGGTA
604772 A
1 A
604773 AACCCTATAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.26
Consensus pattern (46 bp):
ACAATGGTTACGCCACCTTAGAGAAGTCCTTGATGAATCTACGGTA
Found at i:608243 original size:18 final size:19
Alignment explanation
Indices: 608220--608258 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
608210 TTTAAATAGT
608220 AATAAAAATGATTAAA-TA
1 AATAAAAATGATTAAAGTA
* *
608238 AATAAAAGTTATTAAAGTA
1 AATAAAAATGATTAAAGTA
608257 AA
1 AA
608259 AATAAGAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (19 bp):
AATAAAAATGATTAAAGTA
Found at i:609172 original size:19 final size:19
Alignment explanation
Indices: 609148--609186 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
609138 AGGCGTGCCC
609148 ATGTCTCCAACCATGACCA
1 ATGTCTCCAACCATGACCA
*
609167 ATGTCTCCAACCGTGACCA
1 ATGTCTCCAACCATGACCA
609186 A
1 A
609187 ATAATAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.31, C:0.36, G:0.13, T:0.21
Consensus pattern (19 bp):
ATGTCTCCAACCATGACCA
Found at i:617181 original size:64 final size:66
Alignment explanation
Indices: 617029--617188 Score: 204
Period size: 65 Copynumber: 2.5 Consensus size: 66
617019 GAATAAATTG
* * * *
617029 AACATCGAATGCATTTCATGCATCGATGCA-CATACTATGCATCGATCCACTCAGAGTTTTATGA
1 AACATCGAATGCATTTCATGCATCGATGCACCATACCATACATCAATCCACTCAGACTTTTATGA
617093 A
66 A
* * *
617094 AACATCGAATGCATTTGATGCATCGATGCACCA-GCCATACATCAATGCACTCTAG-CTATTT-T
1 AACATCGAATGCATTTCATGCATCGATGCACCATACCATACATCAATCCACTC-AGACT-TTTAT
617156 G-A
64 GAA
617158 AACATCGAATGCATTTCATGCATCGATGCAC
1 AACATCGAATGCATTTCATGCATCGATGCAC
617189 TCTTAGTGCA
Statistics
Matches: 84, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
64 31 0.37
65 46 0.55
66 7 0.08
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (66 bp):
AACATCGAATGCATTTCATGCATCGATGCACCATACCATACATCAATCCACTCAGACTTTTATGA
A
Found at i:623736 original size:20 final size:20
Alignment explanation
Indices: 623711--623748 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
623701 TTTTGGTGCA
*
623711 GAGGGAATCGATACCCCCAT
1 GAGGGAACCGATACCCCCAT
*
623731 GAGGGAACCGATTCCCCC
1 GAGGGAACCGATACCCCC
623749 TTTGAAGGGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.34, G:0.26, T:0.13
Consensus pattern (20 bp):
GAGGGAACCGATACCCCCAT
Found at i:627613 original size:20 final size:20
Alignment explanation
Indices: 627588--627625 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
627578 CCCGAATTTC
*
627588 CTATAACTTTCTAAAACTAT
1 CTATAACTTTCAAAAACTAT
*
627608 CTATAAGTTTCAAAAACT
1 CTATAACTTTCAAAAACT
627626 TATAATTTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.18, G:0.03, T:0.37
Consensus pattern (20 bp):
CTATAACTTTCAAAAACTAT
Found at i:630697 original size:15 final size:17
Alignment explanation
Indices: 630677--630713 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
630667 TTTTACCACA
*
630677 ATTTT-ATCTAAATT-C
1 ATTTTAATCCAAATTAC
630692 ATTTTAATCCAAATTAC
1 ATTTTAATCCAAATTAC
630709 ATTTT
1 ATTTT
630714 TCTTAATTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 5 0.26
16 8 0.42
17 6 0.32
ACGTcount: A:0.35, C:0.14, G:0.00, T:0.51
Consensus pattern (17 bp):
ATTTTAATCCAAATTAC
Found at i:630807 original size:10 final size:10
Alignment explanation
Indices: 630792--630823 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
630782 TAACTTCCTC
630792 CATTTTCTCT
1 CATTTTCTCT
*
630802 CATTTTTTCT
1 CATTTTCTCT
630812 CATTTTCTCT
1 CATTTTCTCT
630822 CA
1 CA
630824 ACCTAGCTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.12, C:0.28, G:0.00, T:0.59
Consensus pattern (10 bp):
CATTTTCTCT
Found at i:637989 original size:143 final size:144
Alignment explanation
Indices: 637811--638097 Score: 486
Period size: 143 Copynumber: 2.0 Consensus size: 144
637801 AATAAGTTTA
* *
637811 TAAAAAGAAGGGAAAGAAAAGGCGCTTTAGAATTTGAACGTAGTAATGAACTCTAATAGTTATGT
1 TAAAAAGAAGGGAAAGAAAAGGCACTTTAGAATTTGAAAGTAGTAATGAACTCTAATAGTTATGT
* * *
637876 ATTTTATAAATTAGTTAAAGA-TTTTTTCAAAACCTATGGAGTCTAACCATTGAGTAACCTTTTG
66 ATTTTATAAATTAGTTAAAGATTTTTTTCAAAACCTAAGAAGCCTAACCATTGAGTAACCTTTTG
*
637940 GTATAAAATATTAC
131 GTATAAAAGATTAC
* *
637954 TAAATAGAAGGGAAAGAAAAGGCACTTTAGAATTTGAAAGTAGTAATGAACTCTAATAGTTTTGT
1 TAAAAAGAAGGGAAAGAAAAGGCACTTTAGAATTTGAAAGTAGTAATGAACTCTAATAGTTATGT
*
638019 GTTTTATAAATTAGTTAAAGATTTTTTTCAAAACCTAAGAAGCCTAACCATTGAGTAACCTTTTG
66 ATTTTATAAATTAGTTAAAGATTTTTTTCAAAACCTAAGAAGCCTAACCATTGAGTAACCTTTTG
638084 GTATAAAAGATTAC
131 GTATAAAAGATTAC
638098 AATCTTTAAA
Statistics
Matches: 134, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
143 81 0.60
144 53 0.40
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (144 bp):
TAAAAAGAAGGGAAAGAAAAGGCACTTTAGAATTTGAAAGTAGTAATGAACTCTAATAGTTATGT
ATTTTATAAATTAGTTAAAGATTTTTTTCAAAACCTAAGAAGCCTAACCATTGAGTAACCTTTTG
GTATAAAAGATTAC
Found at i:648530 original size:32 final size:31
Alignment explanation
Indices: 648492--648568 Score: 82
Period size: 31 Copynumber: 2.5 Consensus size: 31
648482 CGGGGTCATG
* *
648492 GGGCCTACCTAAGAACACATCTTAGGGCTGCA
1 GGGCCTACCTAAGAA-ACATCTCAGGGCCGCA
** **
648524 GGGCCTACCCGAGAATGATCTCAGGGCCGCA
1 GGGCCTACCTAAGAAACATCTCAGGGCCGCA
*
648555 GAGCCTACCTAAGA
1 GGGCCTACCTAAGA
648569 GTCACATTAG
Statistics
Matches: 36, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
31 23 0.64
32 13 0.36
ACGTcount: A:0.27, C:0.30, G:0.27, T:0.16
Consensus pattern (31 bp):
GGGCCTACCTAAGAAACATCTCAGGGCCGCA
Found at i:649601 original size:29 final size:29
Alignment explanation
Indices: 649443--649602 Score: 159
Period size: 29 Copynumber: 5.6 Consensus size: 29
649433 CACATTCGAA
* * *
649443 AATTCCTAAAATGTCTCCTTTTTCAAAAT
1 AATTCCCAGAATGTCACCTTTTTCAAAAT
*
649472 AATTCCCAAAATGT-ACCTTTTTCCAAAAT
1 AATTCCCAGAATGTCACCTTTTT-CAAAAT
* * **
649501 AATT----TAATGCCATTTTTTTTTCAAAAT
1 AATTCCCAGAATGTCA--CCTTTTTCAAAAT
* **
649528 AATTCCCTGAATGTCATATTTTTCAAAAT
1 AATTCCCAGAATGTCACCTTTTTCAAAAT
649557 AATTCCCAGAATGTCACCTTTTTCAAAAT
1 AATTCCCAGAATGTCACCTTTTTCAAAAT
649586 AATTCCCAGAATGTCAC
1 AATTCCCAGAATGTCAC
649603 TGGGTCGGGT
Statistics
Matches: 111, Mismatches: 12, Indels: 16
0.80 0.09 0.12
Matches are distributed among these distances:
25 4 0.04
26 1 0.01
27 10 0.09
28 12 0.11
29 78 0.70
31 6 0.05
ACGTcount: A:0.35, C:0.21, G:0.06, T:0.39
Consensus pattern (29 bp):
AATTCCCAGAATGTCACCTTTTTCAAAAT
Found at i:665751 original size:566 final size:566
Alignment explanation
Indices: 664679--665811 Score: 2212
Period size: 566 Copynumber: 2.0 Consensus size: 566
664669 CCTATACAAC
*
664679 AAAAGCTGAGAAGGATCACACCCGAGATGCTACTCAAAATTAAAGAAGAAGTGAAGAAATAATTT
1 AAAAGCTAAGAAGGATCACACCCGAGATGCTACTCAAAATTAAAGAAGAAGTGAAGAAATAATTT
*
664744 GATGTCAGGTTTCTTAAGGTGGCCAAATATCTTGAGTGGGTGGAAAATATTATCCCAGTGCCAAA
66 GATGTCAGGTTTCTTAAGGTGGCCAAATATCCTGAGTGGGTGGAAAATATTATCCCAGTGCCAAA
664809 GAATGATGAAAAGGTTCGAATGTGTGTCGACTACAAAGACCTCAATAGAGCCAATCTAAAGGATA
131 GAATGATGAAAAGGTTCGAATGTGTGTCGACTACAAAGACCTCAATAGAGCCAATCTAAAGGATA
664874 ATTTTCCTTTGCCACATATAGACACTTTAGTGGATAATACTGTTGGAAATTCTTTGTTCTCATTT
196 ATTTTCCTTTGCCACATATAGACACTTTAGTGGATAATACTGTTGGAAATTCTTTGTTCTCATTT
664939 ATGGATGGTTTCTCTGGCTACAATCAAATTAAAATGAACAATGAAGATATGGAAAAAATGACGTT
261 ATGGATGGTTTCTCTGGCTACAATCAAATTAAAATGAACAATGAAGATATGGAAAAAATGACGTT
665004 TATCACAATGTGGGGAACGTTTTGTTATAAAGTAATGCCATTTGGATTGAAGAATGCAGGGGCAA
326 TATCACAATGTGGGGAACGTTTTGTTATAAAGTAATGCCATTTGGATTGAAGAATGCAGGGGCAA
*
665069 CATATCAAAGGGCTATGGTAACATTTTTTCATGACATGATGCATAAAGAAATAGAAGTTTATGTC
391 CATATCAAAGGGCTATGGTAACATTGTTTCATGACATGATGCATAAAGAAATAGAAGTTTATGTC
665134 GATGATATGATTGTCAAAGCCAAGACAGAAAAAGAACACATTGAGAATTTAAGAAAACTTTTTCA
456 GATGATATGATTGTCAAAGCCAAGACAGAAAAAGAACACATTGAGAATTTAAGAAAACTTTTTCA
665199 AAGTCTAATTAAATGCCAGTTAAAACTCAACCCAAATAAGTGTACT
521 AAGTCTAATTAAATGCCAGTTAAAACTCAACCCAAATAAGTGTACT
*
665245 AAAAGCTAAGAAGGATCACACCCGAGATGCTGCTCAAAATTAAAGAAGAAGTGAAGAAATAATTT
1 AAAAGCTAAGAAGGATCACACCCGAGATGCTACTCAAAATTAAAGAAGAAGTGAAGAAATAATTT
665310 GATGTCAGGTTTCTTAAGGTGGCCAAATATCCTGAGTGGGTGGAAAATATTATCCCAGTGCCAAA
66 GATGTCAGGTTTCTTAAGGTGGCCAAATATCCTGAGTGGGTGGAAAATATTATCCCAGTGCCAAA
665375 GAATGATGAAAAGGTTCGAATGTGTGTCGACTACAAAGACCTCAATAGAGCCAATCTAAAGGATA
131 GAATGATGAAAAGGTTCGAATGTGTGTCGACTACAAAGACCTCAATAGAGCCAATCTAAAGGATA
665440 ATTTTCCTTTGCCACATATAGACACTTTAGTGGATAATACTGTTGGAAATTCTTTGTTCTCATTT
196 ATTTTCCTTTGCCACATATAGACACTTTAGTGGATAATACTGTTGGAAATTCTTTGTTCTCATTT
665505 ATGGATGGTTTCTCTGGCTACAATCAAATTAAAATGAACAATGAAGATATGGAAAAAATGACGTT
261 ATGGATGGTTTCTCTGGCTACAATCAAATTAAAATGAACAATGAAGATATGGAAAAAATGACGTT
*
665570 TATCACAATGTGGGGAACGTTTTGTTATAAAGTAATGCCATTTGGATTGAAGAATGCATGGGCAA
326 TATCACAATGTGGGGAACGTTTTGTTATAAAGTAATGCCATTTGGATTGAAGAATGCAGGGGCAA
665635 CATATCAAAGGGCTATGGTAACATTGTTTCATGACATGATGCATAAAGAAATAGAAGTTTATGTC
391 CATATCAAAGGGCTATGGTAACATTGTTTCATGACATGATGCATAAAGAAATAGAAGTTTATGTC
665700 GATGATATGATTGTCAAAGCCAAGACAGAAAAAGAACACATTGAGAATTTAAGAAAACTTTTTCA
456 GATGATATGATTGTCAAAGCCAAGACAGAAAAAGAACACATTGAGAATTTAAGAAAACTTTTTCA
*
665765 AAGTCTAATTAAATGCCAGTTAAAACTCAACTCAAATAAGTGTACT
521 AAGTCTAATTAAATGCCAGTTAAAACTCAACCCAAATAAGTGTACT
665811 A
1 A
665812 TTGAGGTGAC
Statistics
Matches: 561, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
566 561 1.00
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (566 bp):
AAAAGCTAAGAAGGATCACACCCGAGATGCTACTCAAAATTAAAGAAGAAGTGAAGAAATAATTT
GATGTCAGGTTTCTTAAGGTGGCCAAATATCCTGAGTGGGTGGAAAATATTATCCCAGTGCCAAA
GAATGATGAAAAGGTTCGAATGTGTGTCGACTACAAAGACCTCAATAGAGCCAATCTAAAGGATA
ATTTTCCTTTGCCACATATAGACACTTTAGTGGATAATACTGTTGGAAATTCTTTGTTCTCATTT
ATGGATGGTTTCTCTGGCTACAATCAAATTAAAATGAACAATGAAGATATGGAAAAAATGACGTT
TATCACAATGTGGGGAACGTTTTGTTATAAAGTAATGCCATTTGGATTGAAGAATGCAGGGGCAA
CATATCAAAGGGCTATGGTAACATTGTTTCATGACATGATGCATAAAGAAATAGAAGTTTATGTC
GATGATATGATTGTCAAAGCCAAGACAGAAAAAGAACACATTGAGAATTTAAGAAAACTTTTTCA
AAGTCTAATTAAATGCCAGTTAAAACTCAACCCAAATAAGTGTACT
Found at i:667630 original size:55 final size:55
Alignment explanation
Indices: 667555--667780 Score: 281
Period size: 55 Copynumber: 4.1 Consensus size: 55
667545 GGAGTAGACT
* * * * *
667555 CATTTTCTGAAGATTTTTCAAGTCCTATACTCCTTGAAAGACGAGGGAGTGGACC
1 CATTTTCCGAAGATTGTTCAAGTCCTATACTCCTTGAAAGAAGAAGGAGCGGACC
* * * *
667610 CATTTTCCGAAGATTGTTCAAGTCATATACTCTTTGAAAGAAGAGGGAGCGAACC
1 CATTTTCCGAAGATTGTTCAAGTCCTATACTCCTTGAAAGAAGAAGGAGCGGACC
* * * *
667665 CATTTTTCGAAGATTGTTCAAGTCCTATACTCTTTGAAAGAAGAAGGAGAGGACA
1 CATTTTCCGAAGATTGTTCAAGTCCTATACTCCTTGAAAGAAGAAGGAGCGGACC
* * * * * *
667720 CGTTTTCCAAATATTGTTTAAGTCCTATACTCCTTGATAGAAGAAGGAGCAGACC
1 CATTTTCCGAAGATTGTTCAAGTCCTATACTCCTTGAAAGAAGAAGGAGCGGACC
667775 CATTTT
1 CATTTT
667781 TTGATCATGG
Statistics
Matches: 147, Mismatches: 24, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
55 147 1.00
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (55 bp):
CATTTTCCGAAGATTGTTCAAGTCCTATACTCCTTGAAAGAAGAAGGAGCGGACC
Found at i:668103 original size:26 final size:26
Alignment explanation
Indices: 668057--668112 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
668047 TGTTATATGT
* *
668057 ATTATTATTATATAGATTATAAATAA
1 ATTATTAATATATAAATTATAAATAA
* *
668083 ATTATTAATAT-TAAATATATACATAT
1 ATTATTAATATATAAAT-TATAAATAA
668109 ATTA
1 ATTA
668113 ATTGAACTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
25 4 0.16
26 21 0.84
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (26 bp):
ATTATTAATATATAAATTATAAATAA
Found at i:673354 original size:49 final size:48
Alignment explanation
Indices: 673275--673374 Score: 157
Period size: 48 Copynumber: 2.1 Consensus size: 48
673265 TCAAATGATA
*
673275 ATGCTTCCAACATAGATGACTAAGAATTTTTTTTTCTTTCATGTTATAC
1 ATGCTTCCAACATAGATGAC-AAGAATTTTTTTCTCTTTCATGTTATAC
*
673324 ATGCTTCCAACATAGATGGC-AGAATTTTTTTTCTCTTTCATGTTATAC
1 ATGCTTCCAACATAGATGACAAGAA-TTTTTTTCTCTTTCATGTTATAC
673372 ATG
1 ATG
673375 TACTATTAGG
Statistics
Matches: 48, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
47 4 0.08
48 25 0.52
49 19 0.40
ACGTcount: A:0.27, C:0.17, G:0.12, T:0.44
Consensus pattern (48 bp):
ATGCTTCCAACATAGATGACAAGAATTTTTTTCTCTTTCATGTTATAC
Found at i:673372 original size:48 final size:48
Alignment explanation
Indices: 673275--673374 Score: 166
Period size: 49 Copynumber: 2.1 Consensus size: 48
673265 TCAAATGATA
673275 ATGCTTCCAACATAGATGACTAAGAATTTTTTTTTCTTTCATGTTATAC
1 ATGCTTCCAACATAGATGAC-AAGAATTTTTTTTTCTTTCATGTTATAC
*
673324 ATGCTTCCAACATAGATGGC-AGAATTTTTTTTCTCTTTCATGTTATAC
1 ATGCTTCCAACATAGATGACAAGAATTTTTTTT-TCTTTCATGTTATAC
673372 ATG
1 ATG
673375 TACTATTAGG
Statistics
Matches: 49, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
47 12 0.24
48 18 0.37
49 19 0.39
ACGTcount: A:0.27, C:0.17, G:0.12, T:0.44
Consensus pattern (48 bp):
ATGCTTCCAACATAGATGACAAGAATTTTTTTTTCTTTCATGTTATAC
Found at i:677214 original size:11 final size:11
Alignment explanation
Indices: 677198--677236 Score: 69
Period size: 11 Copynumber: 3.5 Consensus size: 11
677188 TTTAAAGATA
677198 AAGATGGTGTG
1 AAGATGGTGTG
677209 AAGATGGTGTG
1 AAGATGGTGTG
677220 AAGATGGTGGTG
1 AAGATGGT-GTG
677232 AAGAT
1 AAGAT
677237 AAATGAACCT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 19 0.70
12 8 0.30
ACGTcount: A:0.31, C:0.00, G:0.44, T:0.26
Consensus pattern (11 bp):
AAGATGGTGTG
Found at i:678217 original size:20 final size:20
Alignment explanation
Indices: 678192--678242 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
678182 ATGGTAACAT
*
678192 TTGGTAAAGAGAAATGACTC
1 TTGGTAAAGAGAAACGACTC
*
678212 TTGGTAAAGAGACACGACTC
1 TTGGTAAAGAGAAACGACTC
*
678232 TTGGTGAAGAG
1 TTGGTAAAGAG
678243 TCACAACTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.35, C:0.12, G:0.29, T:0.24
Consensus pattern (20 bp):
TTGGTAAAGAGAAACGACTC
Found at i:678255 original size:20 final size:20
Alignment explanation
Indices: 678192--678259 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
678182 ATGGTAACAT
* **
678192 TTGGTAAAGAGAAATGACTC
1 TTGGTAAAGAGACACAACTC
*
678212 TTGGTAAAGAGACACGACTC
1 TTGGTAAAGAGACACAACTC
* * *
678232 TTGGTGAAGAGTCACAACTT
1 TTGGTAAAGAGACACAACTC
678252 TTGGTAAA
1 TTGGTAAA
678260 TAGGCATAAC
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.26
Consensus pattern (20 bp):
TTGGTAAAGAGACACAACTC
Found at i:681229 original size:46 final size:45
Alignment explanation
Indices: 681162--681555 Score: 617
Period size: 46 Copynumber: 8.6 Consensus size: 45
681152 TAAATAAAAT
681162 GCATGAAAGGATGCCATAAATAAAATGCATGAAATGGTGCATTAAG
1 GCATGAAAGGATGCCATAAATAAAATGCATGAAA-GGTGCATTAAG
*
681208 GCATGAAAGGATGCCATAAATAAAATGCATGAAAAGATGCATTAAG
1 GCATGAAAGGATGCCATAAATAAAATGCATG-AAAGGTGCATTAAG
* * *
681254 GCATGAATGGATGCCATAAATAAAATACATGAAATGATGCATTAAG
1 GCATGAAAGGATGCCATAAATAAAATGCATGAAA-GGTGCATTAAG
*
681300 GCATGAAGGGATGCCATAAATAAAATGCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCCATAAATAAAATGCATGAAAGG-TGCATTAAG
*
681346 GCATGAAAGGATGTCATAAATAAAATGCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCCATAAATAAAATGCATGAAAGG-TGCATTAAG
* *
681392 GCATGAAAGGATGCCATAAATAAAATGCATGGAATGATGCATTAAG
1 GCATGAAAGGATGCCATAAATAAAATGCAT-GAAAGGTGCATTAAG
*
681438 GCATGAAAGGATGCCATAAATAAAATGTATGAAAGGGTGCATTAAG
1 GCATGAAAGGATGCCATAAATAAAATGCATGAAA-GGTGCATTAAG
**
681484 AAATGAAAGGATGCCATAAATAAAATGCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCCATAAATAAAATGCATGAAAGG-TGCATTAAG
681530 GCATGAAAGGATGCCATAAATAAAAT
1 GCATGAAAGGATGCCATAAATAAAAT
681556 AAAATTTAAT
Statistics
Matches: 323, Mismatches: 19, Indels: 12
0.91 0.05 0.03
Matches are distributed among these distances:
45 9 0.03
46 307 0.95
47 7 0.02
ACGTcount: A:0.46, C:0.10, G:0.23, T:0.21
Consensus pattern (45 bp):
GCATGAAAGGATGCCATAAATAAAATGCATGAAAGGTGCATTAAG
Found at i:681410 original size:138 final size:137
Alignment explanation
Indices: 681162--681556 Score: 682
Period size: 138 Copynumber: 2.9 Consensus size: 137
681152 TAAATAAAAT
681162 GCATGAAAGGATGCCATAAATAAAATGCATGAAATGGTGCATTAAGGCATGAAAGGATGCCATAA
1 GCATGAAAGGATGCCATAAATAAAATGCATGAAA-GGTGCATTAAGGCATGAAAGGATGCCATAA
* *
681227 ATAAAATGCATGAAAAGATGCATTAAGGCATGAATGGATGCCATAAATAAAATACATGAAATGAT
65 ATAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAATAAAATACATGAAATGAT
681292 GCATTAAG
130 GCATTAAG
* *
681300 GCATGAAGGGATGCCATAAATAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGTCATAA
1 GCATGAAAGGATGCCATAAATAAAATGCATGAAAGG-TGCATTAAGGCATGAAAGGATGCCATAA
* *
681365 ATAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAATAAAATGCATGGAATGAT
65 ATAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAATAAAATACATGAAATGAT
681430 GCATTAAG
130 GCATTAAG
* **
681438 GCATGAAAGGATGCCATAAATAAAATGTATGAAAGGGTGCATTAAGAAATGAAAGGATGCCATAA
1 GCATGAAAGGATGCCATAAATAAAATGCATGAAA-GGTGCATTAAGGCATGAAAGGATGCCATAA
681503 ATAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAATAAAATA
65 ATAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAATAAAATA
681557 AAATTTAATG
Statistics
Matches: 243, Mismatches: 12, Indels: 4
0.94 0.05 0.02
Matches are distributed among these distances:
137 2 0.01
138 239 0.98
139 2 0.01
ACGTcount: A:0.46, C:0.10, G:0.23, T:0.21
Consensus pattern (137 bp):
GCATGAAAGGATGCCATAAATAAAATGCATGAAAGGTGCATTAAGGCATGAAAGGATGCCATAAA
TAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAATAAAATACATGAAATGATG
CATTAAG
Found at i:685114 original size:44 final size:44
Alignment explanation
Indices: 685064--685149 Score: 145
Period size: 44 Copynumber: 2.0 Consensus size: 44
685054 ATGAATAGTG
* *
685064 CCCCGAGGGACATGAGTGACATAATAGGGTAATGATAGCATAGC
1 CCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATAGC
*
685108 CCCCGAGGGACATGAGTTACATAATAGGGCAATGATAACATA
1 CCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATA
685150 TTCTCTGGCA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.36, C:0.19, G:0.27, T:0.19
Consensus pattern (44 bp):
CCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATAGC
Found at i:685307 original size:44 final size:44
Alignment explanation
Indices: 685223--685309 Score: 147
Period size: 44 Copynumber: 2.0 Consensus size: 44
685213 CATGAATAGT
* * *
685223 GCCCCCGAGGGACATGAGTGACATAATAGGGTATTGATAACATA
1 GCCCCCGAGGGACATGAGTGACATAATAGGGCAATAATAACATA
685267 GCCCCCGAGGGACATGAGTGACATAATAGGGCAATAATAACAT
1 GCCCCCGAGGGACATGAGTGACATAATAGGGCAATAATAACAT
685310 GTTCTCTGAC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.36, C:0.20, G:0.26, T:0.18
Consensus pattern (44 bp):
GCCCCCGAGGGACATGAGTGACATAATAGGGCAATAATAACATA
Found at i:685309 original size:161 final size:161
Alignment explanation
Indices: 684954--685519 Score: 900
Period size: 161 Copynumber: 3.5 Consensus size: 161
684944 AGTTCTTCGG
* * *
684954 GGGACATGAGTGACATAATAGGGCAATGATAATATATTATCTGACAAAATAATGGAAGGCGTGCC
1 GGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCGCC
**
685019 CCTGGGAACGCGCTTTCACCACTTTGGGTACTGACATGAATAGTG-CCCCGAGGGACATGAGTGA
66 CCCAGGAACGCGCTTTCACCACTTTGGGTACTGACATGAATAGTGCCCCCGAGGGACATGAGTGA
*
685083 CATAATAGGGTAATGATAGCATAGCCCCCGA
131 CATAATAGGGTAATGATAACATAGCCCCCGA
* *
685114 GGGACATGAGTTACATAATAGGGCAATGATAACATATTCTCTGGCAAAATAATGGAAGGCGCGCC
1 GGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCGCC
685179 CCCAGGAACGCGCTTTCACCACTTTGGGTACTGACATGAATAGTGCCCCCGAGGGACATGAGTGA
66 CCCAGGAACGCGCTTTCACCACTTTGGGTACTGACATGAATAGTGCCCCCGAGGGACATGAGTGA
*
685244 CATAATAGGGTATTGATAACATAGCCCCCGA
131 CATAATAGGGTAATGATAACATAGCCCCCGA
* * *
685275 GGGACATGAGTGACATAATAGGGCAATAATAACATGTTCTCTGACAAAATAATGGAAGGCGTGCC
1 GGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCGCC
*
685340 CCCAGGAACGCGCTTTCACCACTTTGGGTACTGACATGAATAGTGCCCCTGAGGGACATGAGTGA
66 CCCAGGAACGCGCTTTCACCACTTTGGGTACTGACATGAATAGTGCCCCCGAGGGACATGAGTGA
* * *
685405 CATAATAGGGTAATGATTACATAGCCTCTGA
131 CATAATAGGGTAATGATAACATAGCCCCCGA
* ** * * *
685436 GGGATATTTGTGACATAATAGGGAAATGATATCATATTCTCTGATAAAATAATGGAAGGCGCGCC
1 GGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCGCC
* * *
685501 CCCGGGAACACGCCTTCAC
66 CCCAGGAACGCGCTTTCAC
685520 GTGAATAGTA
Statistics
Matches: 374, Mismatches: 31, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
160 103 0.28
161 271 0.72
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.22
Consensus pattern (161 bp):
GGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCGCC
CCCAGGAACGCGCTTTCACCACTTTGGGTACTGACATGAATAGTGCCCCCGAGGGACATGAGTGA
CATAATAGGGTAATGATAACATAGCCCCCGA
Found at i:688632 original size:16 final size:15
Alignment explanation
Indices: 688589--688633 Score: 58
Period size: 14 Copynumber: 3.0 Consensus size: 15
688579 TATGTACACC
688589 TAAATAATTTTTT-TT
1 TAAA-AATTTTTTATT
688604 TAAAAA-TTTTTATT
1 TAAAAATTTTTTATT
688618 TAAAAATTATTTTATT
1 TAAAAATT-TTTTATT
688634 ATATTTATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
13 5 0.19
14 10 0.37
15 5 0.19
16 7 0.26
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TAAAAATTTTTTATT
Found at i:688663 original size:22 final size:23
Alignment explanation
Indices: 688638--688685 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 23
688628 TTTATTATAT
*
688638 TTATTTAATATAATAATTAA-TA
1 TTATTTAATATAAAAATTAATTA
*
688660 TTATTTATTATAAAAATTAATTA
1 TTATTTAATATAAAAATTAATTA
688683 TTA
1 TTA
688686 ATTTTCAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
TTATTTAATATAAAAATTAATTA
Found at i:688680 original size:26 final size:25
Alignment explanation
Indices: 688612--688689 Score: 74
Period size: 26 Copynumber: 3.1 Consensus size: 25
688602 TTTAAAAATT
* *
688612 TTTATTTAAAAATTATTTTATTATA
1 TTTATTTAAAAATTAATTAATTATA
688637 TTTATTTAATATAA-TAATTAA-TATTA
1 TTTATTTAA-A-AATTAATTAATTA-TA
688663 TTTATTATAAAAATTAATT-ATTA-A
1 TTTATT-TAAAAATTAATTAATTATA
688687 TTT
1 TTT
688690 TCAAATATTA
Statistics
Matches: 45, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
24 4 0.09
25 14 0.31
26 22 0.49
27 5 0.11
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (25 bp):
TTTATTTAAAAATTAATTAATTATA
Found at i:688949 original size:19 final size:19
Alignment explanation
Indices: 688925--688973 Score: 98
Period size: 19 Copynumber: 2.6 Consensus size: 19
688915 TTCGTTAAAT
688925 ATTGATAACATATGACTAG
1 ATTGATAACATATGACTAG
688944 ATTGATAACATATGACTAG
1 ATTGATAACATATGACTAG
688963 ATTGATAACAT
1 ATTGATAACAT
688974 TTAAATAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (19 bp):
ATTGATAACATATGACTAG
Found at i:689007 original size:17 final size:17
Alignment explanation
Indices: 688987--689048 Score: 54
Period size: 17 Copynumber: 3.4 Consensus size: 17
688977 AATAATTAAG
688987 TGATAAAATTAATAGAT
1 TGATAAAATTAATAGAT
*
689004 TGATAACATTTAAATA-ATT
1 TGATAA-AATT-AATAGA-T
689023 AAGTGATAAAATTAATAGAT
1 ---TGATAAAATTAATAGAT
689043 TGATAA
1 TGATAA
689049 TTAAAATAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 14
0.69 0.04 0.27
Matches are distributed among these distances:
17 12 0.33
18 4 0.11
19 5 0.14
20 5 0.14
21 4 0.11
22 6 0.17
ACGTcount: A:0.52, C:0.02, G:0.11, T:0.35
Consensus pattern (17 bp):
TGATAAAATTAATAGAT
Found at i:689009 original size:39 final size:39
Alignment explanation
Indices: 688960--689048 Score: 178
Period size: 39 Copynumber: 2.3 Consensus size: 39
688950 AACATATGAC
688960 TAGATTGATAACATTTAAATAATTAAGTGATAAAATTAA
1 TAGATTGATAACATTTAAATAATTAAGTGATAAAATTAA
688999 TAGATTGATAACATTTAAATAATTAAGTGATAAAATTAA
1 TAGATTGATAACATTTAAATAATTAAGTGATAAAATTAA
689038 TAGATTGATAA
1 TAGATTGATAA
689049 TTAAAATAAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 50 1.00
ACGTcount: A:0.51, C:0.02, G:0.11, T:0.36
Consensus pattern (39 bp):
TAGATTGATAACATTTAAATAATTAAGTGATAAAATTAA
Found at i:689029 original size:22 final size:22
Alignment explanation
Indices: 688965--689031 Score: 74
Period size: 22 Copynumber: 3.3 Consensus size: 22
688955 ATGACTAGAT
688965 TGATAACATTTAAATAATTAAG
1 TGATAACATTTAAATAATTAAG
*
688987 TGATAA-AATT-AATAGA-T---
1 TGATAACATTTAAATA-ATTAAG
689004 TGATAACATTTAAATAATTAAG
1 TGATAACATTTAAATAATTAAG
689026 TGATAA
1 TGATAA
689032 AATTAATAGA
Statistics
Matches: 36, Mismatches: 2, Indels: 14
0.69 0.04 0.27
Matches are distributed among these distances:
17 6 0.17
18 4 0.11
19 5 0.14
20 5 0.14
21 4 0.11
22 12 0.33
ACGTcount: A:0.51, C:0.03, G:0.10, T:0.36
Consensus pattern (22 bp):
TGATAACATTTAAATAATTAAG
Found at i:689790 original size:31 final size:31
Alignment explanation
Indices: 689752--689954 Score: 379
Period size: 31 Copynumber: 6.5 Consensus size: 31
689742 TATTTTAAAA
689752 GTTACAAATCGGTCACTAACGTTATCGATTG
1 GTTACAAATCGGTCACTAACGTTATCGATTG
689783 GTTACAAATCGGTCACTAACGTTATCGATTG
1 GTTACAAATCGGTCACTAACGTTATCGATTG
*
689814 GTTACAAATCGATCACTAACGTTATCGATTG
1 GTTACAAATCGGTCACTAACGTTATCGATTG
*
689845 GTTATAAATCGGTCACTAACGTTATCGATTG
1 GTTACAAATCGGTCACTAACGTTATCGATTG
689876 GTTACAAATCGGTCACTAACGTTATCGATTG
1 GTTACAAATCGGTCACTAACGTTATCGATTG
689907 GTTACAAATCGGTCACTAACGTTATCGATTG
1 GTTACAAATCGGTCACTAACGTTATCGATTG
*
689938 GTTACAAATTGGTCACT
1 GTTACAAATCGGTCACT
689955 CAATGTTAAC
Statistics
Matches: 167, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 167 1.00
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.33
Consensus pattern (31 bp):
GTTACAAATCGGTCACTAACGTTATCGATTG
Found at i:690365 original size:27 final size:27
Alignment explanation
Indices: 690293--690365 Score: 75
Period size: 24 Copynumber: 2.7 Consensus size: 27
690283 AATAATTTTA
690293 ATAATTAA-ATTATAATATATATTATATT
1 ATAATTAATATTA-AAT-TATATTATATT
690321 ATAATTAATGA-T-AA-TATA-TATATT
1 ATAATTAAT-ATTAAATTATATTATATT
690345 ATAATTAATATTCAAATTATA
1 ATAATTAATATT-AAATTATA
690366 ATCATAAGAT
Statistics
Matches: 39, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
23 1 0.03
24 16 0.41
25 4 0.10
26 2 0.05
27 6 0.15
28 8 0.21
29 1 0.03
30 1 0.03
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (27 bp):
ATAATTAATATTAAATTATATTATATT
Found at i:691297 original size:28 final size:28
Alignment explanation
Indices: 691257--691323 Score: 125
Period size: 28 Copynumber: 2.4 Consensus size: 28
691247 CAAACCCGAC
691257 CCGACCCGAATATCACACTTAAAAAAAA
1 CCGACCCGAATATCACACTTAAAAAAAA
*
691285 CCGACCCGAATATCACACTTAAAAAAAC
1 CCGACCCGAATATCACACTTAAAAAAAA
691313 CCGACCCGAAT
1 CCGACCCGAAT
691324 CTGAAATATT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.45, C:0.33, G:0.09, T:0.13
Consensus pattern (28 bp):
CCGACCCGAATATCACACTTAAAAAAAA
Found at i:692116 original size:2 final size:2
Alignment explanation
Indices: 692111--692162 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
692101 GTTCGTGCAC
692111 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
692153 AT AT AT AT AT
1 AT AT AT AT AT
692163 GAAATTATTA
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:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:692421 original size:36 final size:36
Alignment explanation
Indices: 692381--692449 Score: 88
Period size: 36 Copynumber: 1.9 Consensus size: 36
692371 ATTATTTAAG
692381 TTTAAA-ACTAATTTAATAATTATATAT-ATAAATTAT
1 TTTAAATA-TAATTTAA-AATTATATATAATAAATTAT
* *
692417 TTTAAATATATTTTAAATTTATATATAATAAAT
1 TTTAAATATAATTTAAAATTATATATAATAAAT
692450 AAATATTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
35 9 0.31
36 19 0.66
37 1 0.03
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (36 bp):
TTTAAATATAATTTAAAATTATATATAATAAATTAT
Found at i:692487 original size:18 final size:18
Alignment explanation
Indices: 692400--692488 Score: 72
Period size: 18 Copynumber: 4.7 Consensus size: 18
692390 AATTTAATAA
* * *
692400 TTATATATATAAATTATT
1 TTATATATATATATAAAT
* *
692418 TTAAATATAT-TTTAAAT
1 TTATATATATATATAAAT
*
692435 TTATATATAATAAATAAAT
1 TTATATAT-ATATATAAAT
692454 ATTATATAATAAATATATAAAT
1 -TTATAT-AT--ATATATAAAT
692476 TTATATATATATA
1 TTATATATATATA
692489 AATTGGTTAT
Statistics
Matches: 57, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
17 10 0.18
18 16 0.28
19 5 0.09
20 8 0.14
21 8 0.14
22 10 0.18
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
TTATATATATATATAAAT
Found at i:695075 original size:17 final size:18
Alignment explanation
Indices: 695038--695079 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
695028 ATAGAGTTTT
*
695038 AATTGAAAATATATAAAA
1 AATTTAAAATATATAAAA
695056 AATTTAAAATATAT-AAA
1 AATTTAAAATATATAAAA
695073 AATTTAA
1 AATTTAA
695080 TTTTTTTTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 10 0.43
18 13 0.57
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (18 bp):
AATTTAAAATATATAAAA
Found at i:695655 original size:26 final size:26
Alignment explanation
Indices: 695626--695676 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
695616 GCCTTTTCTT
* *
695626 AGTCTTAACTTAGACTACATTTCCTG
1 AGTCTTAAATTAAACTACATTTCCTG
*
695652 AGTCTTAAATTAAATTACATTTCCT
1 AGTCTTAAATTAAACTACATTTCCT
695677 TTTACACTCC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.31, C:0.20, G:0.08, T:0.41
Consensus pattern (26 bp):
AGTCTTAAATTAAACTACATTTCCTG
Found at i:698177 original size:19 final size:19
Alignment explanation
Indices: 698153--698196 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
698143 TTAGAGGGCA
*
698153 TGTATTTTTATATGAACTT
1 TGTATTTTTATATGAACTC
*
698172 TGTATTTTTATATGGACTC
1 TGTATTTTTATATGAACTC
698191 TGTATT
1 TGTATT
698197 ATTCGTGTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.23, C:0.07, G:0.14, T:0.57
Consensus pattern (19 bp):
TGTATTTTTATATGAACTC
Found at i:704331 original size:20 final size:20
Alignment explanation
Indices: 704302--704339 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
704292 ATAAATACTC
704302 AGGGTGAGTATCGATACCCA
1 AGGGTGAGTATCGATACCCA
*
704322 AGGGTTAGTATCGATACC
1 AGGGTGAGTATCGATACC
704340 TCAGGCACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (20 bp):
AGGGTGAGTATCGATACCCA
Found at i:706111 original size:31 final size:32
Alignment explanation
Indices: 706044--706107 Score: 78
Period size: 31 Copynumber: 2.0 Consensus size: 32
706034 TTATAAAGGT
**
706044 AGATTGGAAAAAAATTAGGAACCTTAATGTATA
1 AGATTGG-AAAAAATTAGGAACCACAATGTATA
*
706077 AGATTGG-AAAAATTAGGAGCCACAAT-TATA
1 AGATTGGAAAAAATTAGGAACCACAATGTATA
706107 A
1 A
706108 AGATAGAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
30 5 0.18
31 16 0.57
33 7 0.25
ACGTcount: A:0.48, C:0.08, G:0.19, T:0.25
Consensus pattern (32 bp):
AGATTGGAAAAAATTAGGAACCACAATGTATA
Found at i:711034 original size:15 final size:15
Alignment explanation
Indices: 711000--711035 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
710990 CCAGTAGAGT
*
711000 AGGAGGAAGAGGTGG
1 AGGAGGAAGAGGAGG
711015 AGGAGGAAGAGGAGG
1 AGGAGGAAGAGGAGG
*
711030 GGGAGG
1 AGGAGG
711036 TGCTGCAACT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.64, T:0.03
Consensus pattern (15 bp):
AGGAGGAAGAGGAGG
Found at i:715550 original size:2 final size:2
Alignment explanation
Indices: 715530--715615 Score: 147
Period size: 2 Copynumber: 42.5 Consensus size: 2
715520 AAAACAGTAA
715530 AT AT CAT AT A- AT GAT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT -AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
715573 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
715615 A
1 A
715616 GAACATATGT
Statistics
Matches: 81, Mismatches: 0, Indels: 6
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.01
2 76 0.94
3 4 0.05
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (2 bp):
AT
Found at i:716005 original size:24 final size:24
Alignment explanation
Indices: 715950--716005 Score: 80
Period size: 24 Copynumber: 2.3 Consensus size: 24
715940 AACATAGGTG
715950 CCATATAAAATGTACACAAATGTA
1 CCATATAAAATGTACACAAATGTA
715974 CC-TCATAAAATGTACA-AATATGTA
1 CCAT-ATAAAATGTACACAA-ATGTA
715998 CCATATAA
1 CCATATAA
716006 TCACTCCACC
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
23 3 0.10
24 25 0.86
25 1 0.03
ACGTcount: A:0.48, C:0.18, G:0.07, T:0.27
Consensus pattern (24 bp):
CCATATAAAATGTACACAAATGTA
Found at i:716239 original size:60 final size:61
Alignment explanation
Indices: 716127--716242 Score: 157
Period size: 60 Copynumber: 1.9 Consensus size: 61
716117 ACATATCATG
* *
716127 ATATCATATAAACGTTTATTGGGCAGTTCATACCCGAAATCATCTATAAACCATTTAATAAA
1 ATATCATATAAAC-TTCATTGGGCAATTCATACCCGAAATCATCTATAAACCATTTAATAAA
*
716189 ATATCATATAAA-TTGCATTGGGTAATTCATACCC-AAATCAT-TCATAAACCATTT
1 ATATCATATAAACTT-CATTGGGCAATTCATACCCGAAATCATCT-ATAAACCATTT
716243 CCAAATATCA
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
59 1 0.02
60 20 0.41
61 16 0.33
62 12 0.24
ACGTcount: A:0.40, C:0.18, G:0.09, T:0.34
Consensus pattern (61 bp):
ATATCATATAAACTTCATTGGGCAATTCATACCCGAAATCATCTATAAACCATTTAATAAA
Found at i:719087 original size:12 final size:12
Alignment explanation
Indices: 719072--719107 Score: 65
Period size: 12 Copynumber: 3.1 Consensus size: 12
719062 ATAATCCCTG
719072 ATCAAATCCATA
1 ATCAAATCCATA
719084 ATCAAATCCATA
1 ATCAAATCCATA
719096 ATCAAAT-CATA
1 ATCAAATCCATA
719107 A
1 A
719108 ATAAATAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 5 0.21
12 19 0.79
ACGTcount: A:0.53, C:0.22, G:0.00, T:0.25
Consensus pattern (12 bp):
ATCAAATCCATA
Found at i:724353 original size:18 final size:18
Alignment explanation
Indices: 724313--724357 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
724303 GATAAAATAT
*
724313 AAAATAACATAATAATTC
1 AAAATAAAATAATAATTC
*
724331 AAAATAAAATAATTTATTC
1 AAAATAAAATAA-TAATTC
*
724350 AAATTAAA
1 AAAATAAA
724358 CACTTGAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 11 0.48
19 12 0.52
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.31
Consensus pattern (18 bp):
AAAATAAAATAATAATTC
Found at i:726169 original size:20 final size:21
Alignment explanation
Indices: 726134--726175 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
726124 TAACTTAATC
*
726134 TAAAAATCAACCTG-AAAGCT
1 TAAAAATCAAACTGAAAAGCT
*
726154 TAAAAATCAAATTGAAAAGCT
1 TAAAAATCAAACTGAAAAGCT
726175 T
1 T
726176 TCCTTACCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.52, C:0.14, G:0.10, T:0.24
Consensus pattern (21 bp):
TAAAAATCAAACTGAAAAGCT
Found at i:726859 original size:29 final size:29
Alignment explanation
Indices: 726770--726859 Score: 99
Period size: 31 Copynumber: 3.0 Consensus size: 29
726760 CAAAATATAT
* *
726770 AACTTTTAAAAATTACATTTTTGGTAACCA
1 AACTTTTAAAAATTATA-TTTTGGTAACTA
* *
726800 AACTTTTACAAAGTTTATACTTTGGTAACTA
1 AACTTTTA-AAA-ATTATATTTTGGTAACTA
* *
726831 AACTTTTAAAACTTATATTTTGGTCACTA
1 AACTTTTAAAAATTATATTTTGGTAACTA
726860 GCCAAAATTC
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 15 0.29
30 11 0.22
31 21 0.41
32 4 0.08
ACGTcount: A:0.37, C:0.13, G:0.08, T:0.42
Consensus pattern (29 bp):
AACTTTTAAAAATTATATTTTGGTAACTA
Found at i:737776 original size:3 final size:3
Alignment explanation
Indices: 737770--737817 Score: 60
Period size: 3 Copynumber: 16.0 Consensus size: 3
737760 TATATATATT
* * * *
737770 TAA TAA TAA TAA TTA TTA TTA TTA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
737818 ATAAATAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (3 bp):
TAA
Found at i:738192 original size:124 final size:120
Alignment explanation
Indices: 737974--738254 Score: 363
Period size: 124 Copynumber: 2.3 Consensus size: 120
737964 CCTTCTCTTT
* * * *
737974 CTTCAGATGAGTTCTTCTCATTATGAACTTTCCACTGG---GGATGATGTTGACCTATTTCCTTC
1 CTTCAGATGAGTTCTTCTCATTATGAACTTT-CTCTGGAAAGGATGATGCTAACCTATTTCCTTA
* *
738036 TGTGATAGAGTCATTCAAAAGATTGAATAAGCTCTTCTCATTATGAACTTCTTCTTTCTC
65 TGTGATAGAATCATGCAAAAGATTGAATAAGCTCTTCTCATTATGAA---CTT-TTTCTC
** * *
738096 CTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAGTTTGATGCTAATCTATTTGCTTAT
1 CTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAGGATGATGCTAACCTATTTCCTTAT
* * * *
738161 GTGATAGAATTATGCAAAAGGTTGAATAAGCTCTTCTCATTGTGAACTTTTTCTT
66 GTGATAGAATCATGCAAAAGATTGAATAAGCTCTTCTCATTATGAACTTTTTCTC
738216 CTTCAGATGAGTTCTTCTCATTATGAAC-TTCTCTGGAAA
1 CTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAA
738255 AAACTGATCC
Statistics
Matches: 142, Mismatches: 14, Indels: 9
0.86 0.08 0.05
Matches are distributed among these distances:
119 11 0.08
120 33 0.23
121 8 0.06
122 31 0.22
124 59 0.42
ACGTcount: A:0.25, C:0.18, G:0.16, T:0.41
Consensus pattern (120 bp):
CTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAGGATGATGCTAACCTATTTCCTTAT
GTGATAGAATCATGCAAAAGATTGAATAAGCTCTTCTCATTATGAACTTTTTCTC
Found at i:738519 original size:116 final size:113
Alignment explanation
Indices: 738174--738586 Score: 568
Period size: 113 Copynumber: 3.7 Consensus size: 113
738164 ATAGAATTAT
* ** *
738174 GCAAAAGGTTGAATAAGCTCTTCTCATTGTGAAC-T-TT-TT-CTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
**
738235 ATTATGAACT-T-CTCTGGAAAAAACTGATCCATCAAGTGATGGATTTGA
66 ATTATGAACTCTAC-CTGG-AAAAGTTGATCCATCAAGTGATGGATTTGA
*
738283 GCAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* *
738348 ATTATGAACTCGAACTGGAAAAGTTGATCCATCAAGTGATGGATTTGA
66 ATTATGAACTCTACCTGGAAAAGTTGATCCATCAAGTGATGGATTTGA
*
738396 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGATGAGTTCTT
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTC--A-GATGAGTTCTT
* * * * * * *
738461 CTCATTATGAACTCTACCTGGCAATGTTAATCCATCAAATAATGAATTTAA
63 CTCATTATGAACTCTACCTGGAAAAGTTGATCCATCAAGTGATGGATTTGA
* *
738512 ACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTT
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
738577 ATTATGAACT
66 ATTATGAACT
738587 TCTTCTTCCT
Statistics
Matches: 272, Mismatches: 23, Indels: 14
0.88 0.07 0.05
Matches are distributed among these distances:
109 29 0.11
110 1 0.00
111 2 0.01
112 2 0.01
113 131 0.48
114 5 0.02
115 1 0.00
116 101 0.37
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.38
Consensus pattern (113 bp):
GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
ATTATGAACTCTACCTGGAAAAGTTGATCCATCAAGTGATGGATTTGA
Found at i:738545 original size:229 final size:222
Alignment explanation
Indices: 738174--738586 Score: 578
Period size: 229 Copynumber: 1.8 Consensus size: 222
738164 ATAGAATTAT
* * * *
738174 GCAAAAGGTTGAATAAGCTCTTCTCATTGTGAACTTTTTCTTCTTCAGATGAGTTCTTCTCATTA
1 GCAAAAGGTTGAACAAACTCTTCTCATTATGAACTTTTCCTTCTTCAGATGAGTTCTTCTCATTA
* * * * * *
738239 TGAACTTCTCTGGAAAAAACTGATCCATCAAGTGATGGATTTGAGCAAAAAGTTGAACAAATTCT
66 TGAACTTCTCTGGAAAAAACTAATCCATCAAATAATGAATTTAAACAAAAAGTTGAACAAATTCT
738304 TCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAA
131 TCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAA
738369 AGTTGATCCATCAAGTGATGGATTTGA
196 AGTTGATCCATCAAGTGATGGATTTGA
*
738396 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGATGAGTTCTT
1 GCAAAAGGTTGAACAAACTCTTCTCATTATGAA---CTT-TTCCTTCTTC--A-GATGAGTTCTT
* *** *
738461 CTCATTATGAAC-TCTACCTGG-CAATGTTAATCCATCAAATAATGAATTTAAACAAAAGGTTGA
59 CTCATTATGAACTTCT--CTGGAAAAAACTAATCCATCAAATAATGAATTTAAACAAAAAGTTGA
*
738524 ACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACT
122 ACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT
738587 TCTTCTTCCT
Statistics
Matches: 165, Mismatches: 17, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
222 29 0.18
225 3 0.02
226 9 0.05
228 4 0.02
229 116 0.70
230 4 0.02
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.38
Consensus pattern (222 bp):
GCAAAAGGTTGAACAAACTCTTCTCATTATGAACTTTTCCTTCTTCAGATGAGTTCTTCTCATTA
TGAACTTCTCTGGAAAAAACTAATCCATCAAATAATGAATTTAAACAAAAAGTTGAACAAATTCT
TCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAA
AGTTGATCCATCAAGTGATGGATTTGA
Found at i:738572 original size:20 final size:20
Alignment explanation
Indices: 738549--738614 Score: 57
Period size: 20 Copynumber: 3.3 Consensus size: 20
738539 TATGAACTTC
738549 TTCTTCCTTCTTCAGATGAG
1 TTCTTCCTTCTTCAGATGAG
* **
738569 TTCTT-CTTATT-ATGAACT-TC
1 TTCTTCCTTCTTCA-G-A-TGAG
738589 TTCTTCCTTCTTCAGATGAG
1 TTCTTCCTTCTTCAGATGAG
738609 TTCTTC
1 TTCTTC
738615 TTATTATGAA
Statistics
Matches: 34, Mismatches: 6, Indels: 12
0.65 0.12 0.23
Matches are distributed among these distances:
18 1 0.03
19 7 0.21
20 18 0.53
21 7 0.21
22 1 0.03
ACGTcount: A:0.15, C:0.24, G:0.11, T:0.50
Consensus pattern (20 bp):
TTCTTCCTTCTTCAGATGAG
Found at i:738573 original size:40 final size:40
Alignment explanation
Indices: 738529--738626 Score: 187
Period size: 40 Copynumber: 2.5 Consensus size: 40
738519 GTTGAACAAA
*
738529 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAG
1 TTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAG
738569 TTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAG
1 TTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAG
738609 TTCTTCTTATTATGAACT
1 TTCTTCTTATTATGAACT
738627 CGAACTGGTA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 57 1.00
ACGTcount: A:0.18, C:0.22, G:0.09, T:0.50
Consensus pattern (40 bp):
TTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAG
Found at i:738684 original size:113 final size:113
Alignment explanation
Indices: 738567--738774 Score: 326
Period size: 113 Copynumber: 1.8 Consensus size: 113
738557 TCTTCAGATG
* *
738567 AGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTCGAAC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAAC
* *
738632 TGGTAATGTTGATCCATTGAATGATGAATTCAAGCAAAAAGTTGAACA
66 TGGTAATGCTGATCCACTGAATGATGAATTCAAGCAAAAAGTTGAACA
* * *
738680 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTTAGGTGAGTTCTTCTCATTATGAACTCTAAC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAAC
* * *
738745 TGGTACTGCTGTTCCACTGAGTGATGAATT
66 TGGTAATGCTGATCCACTGAATGATGAATT
738775 TAAAGTTCTT
Statistics
Matches: 85, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
113 85 1.00
ACGTcount: A:0.25, C:0.19, G:0.15, T:0.41
Consensus pattern (113 bp):
AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAAC
TGGTAATGCTGATCCACTGAATGATGAATTCAAGCAAAAAGTTGAACA
Found at i:738694 original size:153 final size:155
Alignment explanation
Indices: 738413--738911 Score: 491
Period size: 153 Copynumber: 3.1 Consensus size: 155
738403 GTTGAACAAA
* * *
738413 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGATGAGTTCTTCTCATTATGAACTCTAC
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA-ATGATGAGTTCTTCTCATTATGAACTCGAA
* *
738478 CTGGCAATGTTAATCCATCAAATAATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATG
65 CTGGCAATGTTAATCCATCAAATAATGAATTCAAACAAAAAGTTGAACAAATTCTTCTCATTATG
738543 AACTTCTTCTTCCTTCTTCAGATGAG
130 AACTTCTTCTTCCTTCTTCAGATGAG
* *
738569 TTCTTCTTATTATGAACTTCTTCTTCCTTCTTC-A-GATGAGTTCTTCTTATTATGAACTCGAAC
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAATGATGAGTTCTTCTCATTATGAACTCGAAC
* * ** * * *
738632 TGGTAATGTTGATCCATTGAATGATGAATTCAAGCAAAAAGTTGAACAAGTTCTTCTCATTATGA
66 TGGCAATGTTAATCCATCAAATAATGAATTCAAACAAAAAGTTGAACAAATTCTTCTCATTATGA
* *
738697 ACTTCTTCTTCCTTCTTTAGGTGAG
131 ACTTCTTCTTCCTTCTTCAGATGAG
* * *
738722 TTCTTCTCATTATGAAC-TCTAACTGGTACTGCTGTTCCACTGAGTGATGAATTTAAAGTTCTTC
1 TTCTTCTCATTATGAACTTCT-TCT--TCCT--TCTT-CA---A-TGATG-------AGTTCTTC
**** * * * * * * * ** * *
738786 TCATTATGAACTTTTTCTAGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAGGTTGAACA
49 TCATTATGAACTCGAACTGGCAATGTTAATCCATCAAATAATGAATTCAAACAAAAAGTTGAACA
* *
738851 AATTCTTCTCATTATGCATTTCTTCTTCCTTCTTCAGATGAG
114 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAG
738893 TTCTTCTCATTATGAACTT
1 TTCTTCTCATTATGAACTT
738912 TTTTCTGGAA
Statistics
Matches: 283, Mismatches: 40, Indels: 24
0.82 0.12 0.07
Matches are distributed among these distances:
152 3 0.01
153 123 0.43
154 1 0.00
155 3 0.01
156 31 0.11
157 3 0.01
158 1 0.00
162 1 0.00
164 4 0.01
171 112 0.40
172 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.13, T:0.41
Consensus pattern (155 bp):
TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAATGATGAGTTCTTCTCATTATGAACTCGAAC
TGGCAATGTTAATCCATCAAATAATGAATTCAAACAAAAAGTTGAACAAATTCTTCTCATTATGA
ACTTCTTCTTCCTTCTTCAGATGAG
Found at i:739812 original size:115 final size:115
Alignment explanation
Indices: 739682--739995 Score: 567
Period size: 115 Copynumber: 2.7 Consensus size: 115
739672 TTGGTTCTAT
* *
739682 GGTTCCTACCGAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGGTCTTCTT
1 GGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGGTCTTCTT
739747 ATTTCTACTATGAGCACATTCATCTTTCAAA-TCTAATGACTGGTTTTTGG
66 ATTTCTACTATGAGCACATTCATCTTTCAAATTC-AATGACTGGTTTTTGG
739797 GGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGGTCTTCTT
1 GGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGGTCTTCTT
* *
739862 ATTTATGCTATGAGCACATTCATCTTTCAAATTCAATGACTGGTTTTTGG
66 ATTTCTACTATGAGCACATTCATCTTTCAAATTCAATGACTGGTTTTTGG
*
739912 GGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCTAGAAGATGCTATTGGGTCTTCTT
1 GGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGGTCTTCTT
739977 ATTTCTACTATGAGCACAT
66 ATTTCTACTATGAGCACAT
739996 GGCACTTGCT
Statistics
Matches: 191, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
115 189 0.99
116 2 0.01
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (115 bp):
GGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGGTCTTCTT
ATTTCTACTATGAGCACATTCATCTTTCAAATTCAATGACTGGTTTTTGG
Found at i:740989 original size:19 final size:20
Alignment explanation
Indices: 740955--740994 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
740945 CTTTAACTTA
740955 TTTCAAAATTATAAATTGAAT
1 TTTCAAAA-TATAAATTGAAT
740976 TTTCAAAA-ATAAATTGAAT
1 TTTCAAAATATAAATTGAAT
740995 CTCAAATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 11 0.58
21 8 0.42
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.40
Consensus pattern (20 bp):
TTTCAAAATATAAATTGAAT
Found at i:741348 original size:6 final size:6
Alignment explanation
Indices: 741337--741393 Score: 71
Period size: 6 Copynumber: 9.0 Consensus size: 6
741327 TCTTGACCCC
741337 CTTTTT CTTTTT CTTTTT CTTTTCT CTTTTT -TTCTTT CTTTTTT CTTTTTT
1 CTTTTT CTTTTT CTTTTT CTTTT-T CTTTTT CTT-TTT C-TTTTT C-TTTTT
741388 CTTTTT
1 CTTTTT
741394 TTTCTTCAAG
Statistics
Matches: 47, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
5 2 0.04
6 26 0.55
7 17 0.36
8 2 0.04
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (6 bp):
CTTTTT
Found at i:741354 original size:7 final size:7
Alignment explanation
Indices: 741338--741394 Score: 68
Period size: 7 Copynumber: 8.7 Consensus size: 7
741328 CTTGACCCCC
741338 TTTTTC-
1 TTTTTCT
741344 TTTTTC-
1 TTTTTCT
741350 TTTTTCT
1 TTTTTCT
*
741357 TTTCTC-
1 TTTTTCT
741363 TTTTT-T
1 TTTTTCT
*
741369 TCTTTCT
1 TTTTTCT
741376 TTTTTCT
1 TTTTTCT
741383 TTTTTCT
1 TTTTTCT
741390 TTTTT
1 TTTTT
741395 TTCTTCAAGC
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
6 20 0.45
7 24 0.55
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTTTCT
Found at i:741379 original size:26 final size:27
Alignment explanation
Indices: 741338--741395 Score: 91
Period size: 26 Copynumber: 2.2 Consensus size: 27
741328 CTTGACCCCC
*
741338 TTTTTCTTTTTCTTTTTCTTTTCTCTT
1 TTTTTCTTTCTCTTTTTCTTTTCTCTT
*
741365 TTTTTCTTTCT-TTTTTCTTTTTTCTT
1 TTTTTCTTTCTCTTTTTCTTTTCTCTT
741391 TTTTT
1 TTTTT
741396 TCTTCAAGCA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
26 19 0.66
27 10 0.34
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (27 bp):
TTTTTCTTTCTCTTTTTCTTTTCTCTT
Found at i:748736 original size:15 final size:15
Alignment explanation
Indices: 748713--748744 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
748703 TGAAATGAAT
748713 AATGAATGTATGCAA
1 AATGAATGTATGCAA
*
748728 AATGTATGTATGCAA
1 AATGAATGTATGCAA
748743 AA
1 AA
748745 AGGTATTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:754253 original size:2 final size:2
Alignment explanation
Indices: 754248--754282 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
754238 TTATTATTAT
754248 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
754283 TTAATAATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:754292 original size:3 final size:3
Alignment explanation
Indices: 754284--754334 Score: 84
Period size: 3 Copynumber: 17.0 Consensus size: 3
754274 TATATATATT
* *
754284 TAA TAA TAA TAA TAA TAA TTA TAA TAA TAA TTA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
754332 TAA
1 TAA
754335 ATAAATAAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:756729 original size:20 final size:20
Alignment explanation
Indices: 756687--756734 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
756677 TTATTTTCAT
* *
756687 TTTTTAATTTTGAAACATCA
1 TTTTTAATTTTGAAAAATAA
756707 TTTTTATATTTT-AAAAATAA
1 TTTTTA-ATTTTGAAAAATAA
*
756727 TTTCTAAT
1 TTTTTAAT
756735 AATCCGAAGC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 2 0.08
20 17 0.71
21 5 0.21
ACGTcount: A:0.38, C:0.06, G:0.02, T:0.54
Consensus pattern (20 bp):
TTTTTAATTTTGAAAAATAA
Found at i:758312 original size:15 final size:15
Alignment explanation
Indices: 758289--758319 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
758279 ACTCAAGAAT
758289 AAATACTCAAACTTG
1 AAATACTCAAACTTG
*
758304 AAATGCTCAAACTTG
1 AAATACTCAAACTTG
758319 A
1 A
758320 GGTTTGATGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.19, G:0.10, T:0.26
Consensus pattern (15 bp):
AAATACTCAAACTTG
Found at i:758664 original size:19 final size:19
Alignment explanation
Indices: 758640--758692 Score: 97
Period size: 19 Copynumber: 2.8 Consensus size: 19
758630 AAATAGCCAG
758640 AGTGCATCGATGCATGGCT
1 AGTGCATCGATGCATGGCT
758659 AGTGCATCGATGCATGGCT
1 AGTGCATCGATGCATGGCT
*
758678 GGTGCATCGATGCAT
1 AGTGCATCGATGCAT
758693 CAAAGCATGG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.21, C:0.21, G:0.32, T:0.26
Consensus pattern (19 bp):
AGTGCATCGATGCATGGCT
Found at i:758746 original size:27 final size:27
Alignment explanation
Indices: 758661--758738 Score: 129
Period size: 27 Copynumber: 2.9 Consensus size: 27
758651 GCATGGCTAG
* *
758661 TGCATCGATGCATGGCTGGTGCATCGA
1 TGCATCAAAGCATGGCTGGTGCATCGA
758688 TGCATCAAAGCATGGCTGGTGCATCGA
1 TGCATCAAAGCATGGCTGGTGCATCGA
*
758715 TGCATCAAAGCATGGCTGATGCAT
1 TGCATCAAAGCATGGCTGGTGCAT
758739 AAATGCATTC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.24
Consensus pattern (27 bp):
TGCATCAAAGCATGGCTGGTGCATCGA
Found at i:759985 original size:2 final size:2
Alignment explanation
Indices: 759978--760017 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
759968 AATATAATTA
759978 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
760018 TATTGATTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.