Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009175.1 Hibiscus syriacus cultivar Beakdansim tig00112738_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: 10629029
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 47 of 51
Found at i:9698845 original size:102 final size:102
Alignment explanation
Indices: 9698645--9698831 Score: 263
Period size: 102 Copynumber: 1.8 Consensus size: 102
9698635 AGGGACAAAA
* *
9698645 TTTGTTTCAAAAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCTAAAAGAAACTGTCTCAAGGG
1 TTTGTTTCAAAAGAAACTATCTCAAGAGAGACAAAACTTAGTTCTAAAAGAAACTGTCTCAAGAG
9698710 AGACGAAATTTGTTTCAAGGAAAAGATATTCAAAGAT
66 AGACGAAATTTGTTTCAAGGAAAAGATATTCAAAGAT
** * **
9698747 TTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA-TTTGTT-TCAAGGGAAACTGTCTCAAGA
1 TTTGTTTCAAAAGAAACTATCTCAAGAGAGACAAAACTTAGTTCT-AAAAGAAACTGTCTCAAGA
9698810 GAGAC-AAGATTTTGTTTCAAGG
65 GAGACGAA-A-TTTGTTTCAAGG
9698832 GAAACTGTCT
Statistics
Matches: 75, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
100 3 0.04
101 27 0.36
102 45 0.60
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (102 bp):
TTTGTTTCAAAAGAAACTATCTCAAGAGAGACAAAACTTAGTTCTAAAAGAAACTGTCTCAAGAG
AGACGAAATTTGTTTCAAGGAAAAGATATTCAAAGAT
Found at i:9698949 original size:37 final size:36
Alignment explanation
Indices: 9698900--9698984 Score: 116
Period size: 37 Copynumber: 2.3 Consensus size: 36
9698890 GAAACGTTTG
* * *
9698900 TTTCAAGAGAAACTATCTCAAGGGAAACAAAATTTTA
1 TTTCAAGGGAAACTATCTCAAGAGAAACAAAA-TTAA
*
9698937 TTTCAAGGGAAACTATCTCAAGAGAGACAAAATTAA
1 TTTCAAGGGAAACTATCTCAAGAGAAACAAAATTAA
*
9698973 TTTCAAAGGAAA
1 TTTCAAGGGAAA
9698985 TGTTTTCAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 14 0.33
37 29 0.67
ACGTcount: A:0.47, C:0.13, G:0.15, T:0.25
Consensus pattern (36 bp):
TTTCAAGGGAAACTATCTCAAGAGAAACAAAATTAA
Found at i:9699018 original size:15 final size:15
Alignment explanation
Indices: 9699000--9699104 Score: 120
Period size: 15 Copynumber: 6.5 Consensus size: 15
9698990 TCAATGTTTA
9699000 TGTTTCAAGAGAAAC
1 TGTTTCAAGAGAAAC
9699015 TGTTTCAAGAGAAAC
1 TGTTTCAAGAGAAAC
9699030 TGTTTCAAGAGAAAC
1 TGTTTCAAGAGAAAC
* *
9699045 TGTCTCAAAGGAGACAAAATTT
1 TGTTTC-AA-GAG---AAA--C
9699067 TGTTTCAAGAGAAAC
1 TGTTTCAAGAGAAAC
9699082 TGTTTCAAGAGAAAC
1 TGTTTCAAGAGAAAC
*
9699097 TGTCTCAA
1 TGTTTCAA
9699105 AGGAGACAAA
Statistics
Matches: 78, Mismatches: 5, Indels: 14
0.80 0.05 0.14
Matches are distributed among these distances:
15 57 0.73
16 2 0.03
17 6 0.08
20 6 0.08
21 2 0.03
22 5 0.06
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (15 bp):
TGTTTCAAGAGAAAC
Found at i:9699093 original size:52 final size:52
Alignment explanation
Indices: 9699015--9699134 Score: 231
Period size: 52 Copynumber: 2.3 Consensus size: 52
9699005 CAAGAGAAAC
9699015 TGTTTCAAGAGAAACTGTTTCAAGAGAAACTGTCTCAAAGGAGACAAAATTT
1 TGTTTCAAGAGAAACTGTTTCAAGAGAAACTGTCTCAAAGGAGACAAAATTT
9699067 TGTTTCAAGAGAAACTGTTTCAAGAGAAACTGTCTCAAAGGAGACAAAATTT
1 TGTTTCAAGAGAAACTGTTTCAAGAGAAACTGTCTCAAAGGAGACAAAATTT
*
9699119 TGTTTCAAGGGAAACT
1 TGTTTCAAGAGAAACT
9699135 ACCCCAAGAG
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (52 bp):
TGTTTCAAGAGAAACTGTTTCAAGAGAAACTGTCTCAAAGGAGACAAAATTT
Found at i:9699133 original size:37 final size:37
Alignment explanation
Indices: 9699082--9699307 Score: 145
Period size: 37 Copynumber: 6.4 Consensus size: 37
9699072 CAAGAGAAAC
* *
9699082 TGTTTCAAGAGAAACTGTCTCAAAGGAGACAAAATTT
1 TGTTTCAAGGGAAACTGTCTCAAAGGAGATAAAATTT
* * *
9699119 TGTTTCAAGGGAAACT-ACCCCAAGAGAGATAAAATTT
1 TGTTTCAAGGGAAACTGTCTCAAAG-GAGATAAAATTT
* * *
9699156 TGTTTCAAGGGAAACT-ACCCCAAGAGAGATAAAA-TT
1 TGTTTCAAGGGAAACTGTCTCAAAG-GAGATAAAATTT
* * *
9699192 TATTTCAAGGGAAA-TGTTTTC-AA--TG-T----TTT
1 TGTTTCAAGGGAAACTG-TCTCAAAGGAGATAAAATTT
* * *
9699221 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 TGTTTCAAGGGAAACTGTCTCAAAGGAGATAAAATTT
* * * **
9699258 CGTTTCAAGGGAAATTATCTCAATCGAGATAAAA-TT
1 TGTTTCAAGGGAAACTGTCTCAAAGGAGATAAAATTT
**
9699294 CATTTCAAGGGAAA
1 TGTTTCAAGGGAAA
9699308 TGCTTTCAAT
Statistics
Matches: 152, Mismatches: 24, Indels: 27
0.75 0.12 0.13
Matches are distributed among these distances:
29 17 0.11
30 3 0.02
32 2 0.01
33 1 0.01
35 1 0.01
36 37 0.24
37 91 0.60
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (37 bp):
TGTTTCAAGGGAAACTGTCTCAAAGGAGATAAAATTT
Found at i:9699205 original size:36 final size:37
Alignment explanation
Indices: 9699107--9699205 Score: 173
Period size: 37 Copynumber: 2.7 Consensus size: 37
9699097 TGTCTCAAAG
*
9699107 GAGACAAAATTTTGTTTCAAGGGAAACTACCCCAAGA
1 GAGATAAAATTTTGTTTCAAGGGAAACTACCCCAAGA
9699144 GAGATAAAATTTTGTTTCAAGGGAAACTACCCCAAGA
1 GAGATAAAATTTTGTTTCAAGGGAAACTACCCCAAGA
*
9699181 GAGATAAAA-TTTATTTCAAGGGAAA
1 GAGATAAAATTTTGTTTCAAGGGAAA
9699206 TGTTTTCAAT
Statistics
Matches: 60, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
36 15 0.25
37 45 0.75
ACGTcount: A:0.42, C:0.14, G:0.19, T:0.24
Consensus pattern (37 bp):
GAGATAAAATTTTGTTTCAAGGGAAACTACCCCAAGA
Found at i:9699292 original size:102 final size:102
Alignment explanation
Indices: 9699116--9699373 Score: 354
Period size: 102 Copynumber: 2.5 Consensus size: 102
9699106 GGAGACAAAA
* ** * * * *
9699116 TTTTGTTTCAAGGGAAACTACCCCAAGAGAGATAAAATTTTGTTTCAAGGGAAACTACCCCAAGA
1 TTTTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTAGTTTCAAGGGAAACTACCCCAAGA
* *
9699181 GAGATAAAATTTATTTCAAGGGAAATGTTTTCAATGT
66 GAGATAAAATTCATTTCAAGGGAAATGCTTTCAATGT
* * * * **
9699218 TTTTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTCGTTTCAAGGGAAATTATCTCAATC
1 TTTTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTAGTTTCAAGGGAAACTACCCCAAGA
9699283 GAGATAAAATTCATTTCAAGGGAAATGCTTTCAATGT
66 GAGATAAAATTCATTTCAAGGGAAATGCTTTCAATGT
* * *
9699320 TTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTAGTTCCAAAGGAAA
1 TTTTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTAGTTTCAAGGGAAA
9699374 ATGTCCCAAG
Statistics
Matches: 138, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
102 138 1.00
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (102 bp):
TTTTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTAGTTTCAAGGGAAACTACCCCAAGA
GAGATAAAATTCATTTCAAGGGAAATGCTTTCAATGT
Found at i:9699418 original size:102 final size:101
Alignment explanation
Indices: 9699116--9699439 Score: 276
Period size: 102 Copynumber: 3.2 Consensus size: 101
9699106 GGAGACAAAA
* ** * * * * * * * * *
9699116 TTTTGTTTCAAGGGAAACTACCCCAAGAGAGATAAAATTTTGTTTCAAGGGAAACTACCCCAAGA
1 TTTTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTAGTTCCAAAGGAAAATATCCCAAGC
* * * * **
9699181 GAGATAAAATTTATTTCAAGGGAAATGTTTTCAATG
66 GAGACAAAATTCATATCAAGGAAAATGCATTCAATG
* * * * * *
9699217 TTTTTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTCGTTTCAAGGGAAATTATCTCAAT
1 -TTTTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTAGTTCCAAAGGAAAATATCCCAAG
* * * *
9699282 CGAGATAAAATTCATTTCAAGGGAAATGCTTTCAATG
65 CGAGACAAAATTCATATCAAGGAAAATGCATTCAATG
*
9699319 TTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTAGTTCCAAAGGAAAATGTCCCAAG
1 TTT-TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTAGTTCCAAAGGAAAATATCCCAAG
* * * *
9699384 GGAGACGAAATT-AGTATCAATGAAAATAG-ATTCAAATA
65 CGAGACAAAATTCA-TATCAAGGAAAAT-GCATTC-AATG
*
9699422 TTTT-TTTCAAGGGAAACT
1 TTTTGTTTCAAGAGAAACT
9699440 TGGAAACTGT
Statistics
Matches: 188, Mismatches: 30, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
101 17 0.09
102 164 0.87
103 7 0.04
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (101 bp):
TTTTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTAGTTCCAAAGGAAAATATCCCAAGC
GAGACAAAATTCATATCAAGGAAAATGCATTCAATG
Found at i:9700111 original size:31 final size:31
Alignment explanation
Indices: 9700056--9700154 Score: 126
Period size: 32 Copynumber: 3.1 Consensus size: 31
9700046 GTTAAATTCC
* *
9700056 CAAAGATGCCCCAATATTCGATGTTGAATCT
1 CAAAAATGCCCCAATATTTGATGTTGAATCT
* * *
9700087 CAAAAATGCTCCAACATTTGATGTTAAATCT
1 CAAAAATGCCCCAATATTTGATGTTGAATCT
*
9700118 AAAAAAATGCCCCAATATTTGATGTTGAATCTT
1 -CAAAAATGCCCCAATATTTGATGTTGAATC-T
9700151 CAAA
1 CAAA
9700155 GATACCCTCA
Statistics
Matches: 56, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
31 26 0.46
32 29 0.52
33 1 0.02
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.30
Consensus pattern (31 bp):
CAAAAATGCCCCAATATTTGATGTTGAATCT
Found at i:9701202 original size:70 final size:69
Alignment explanation
Indices: 9701085--9701223 Score: 201
Period size: 70 Copynumber: 2.0 Consensus size: 69
9701075 TGTCTCTCTC
*
9701085 TTGATGCTCCATGATCTTCGAGTGGAGTGATTCAATACTTCAGAAATGATTGTGCCTTGATCAAT
1 TTGATGCTCCATGATCTTCGAGTGAAGTGATTCAATACTTCAGAAATGATTGTG-CTTGATCAAT
9701150 CTCAT
65 CTCAT
* * *
9701155 TTGATGCTCTATGATCTTCGAGTGAAGTGGTTCAGTGA-TTC-GAAAATGATTGTGCTTGATCAA
1 TTGATGCTCCATGATCTTCGAGTGAAGTGATTCAAT-ACTTCAG-AAATGATTGTGCTTGATCAA
9701218 TCTCAT
64 TCTCAT
9701224 AGTTTGAATC
Statistics
Matches: 63, Mismatches: 4, Indels: 5
0.88 0.06 0.07
Matches are distributed among these distances:
69 16 0.25
70 46 0.73
71 1 0.02
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.37
Consensus pattern (69 bp):
TTGATGCTCCATGATCTTCGAGTGAAGTGATTCAATACTTCAGAAATGATTGTGCTTGATCAATC
TCAT
Found at i:9701340 original size:15 final size:13
Alignment explanation
Indices: 9701307--9701331 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9701297 TTTCCTTTAT
9701307 TTTTTTCTCTTTG
1 TTTTTTCTCTTTG
9701320 TTTTTTCTCTTT
1 TTTTTTCTCTTT
9701332 TTCTCTTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.16, G:0.04, T:0.80
Consensus pattern (13 bp):
TTTTTTCTCTTTG
Found at i:9704485 original size:9 final size:9
Alignment explanation
Indices: 9704459--9704536 Score: 66
Period size: 9 Copynumber: 8.2 Consensus size: 9
9704449 AAATAGTAAG
*
9704459 TAAAATAAA
1 TAAAAAAAA
9704468 TATAAAAAAA
1 TA-AAAAAAA
9704478 TAAAAAAAA
1 TAAAAAAAA
9704487 TAAAGAAAAA
1 TAAA-AAAAA
*
9704497 GAAGAAAAAA
1 TAA-AAAAAA
* *
9704507 TATATATAAA
1 TA-AAAAAAA
*
9704517 TAAAACAAA
1 TAAAAAAAA
*
9704526 TAAATAAAA
1 TAAAAAAAA
9704535 TA
1 TA
9704537 TTAATAAAAA
Statistics
Matches: 56, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
9 27 0.48
10 27 0.48
11 2 0.04
ACGTcount: A:0.77, C:0.01, G:0.04, T:0.18
Consensus pattern (9 bp):
TAAAAAAAA
Found at i:9704584 original size:41 final size:38
Alignment explanation
Indices: 9704539--9704668 Score: 122
Period size: 39 Copynumber: 3.3 Consensus size: 38
9704529 ATAAAATATT
9704539 AATAAAAAGTAAAAATAATATATATATATATATATATAAT-A
1 AATAAAAA-TAAAAATAATATATATATATA-A-AT-TAATAA
*
9704580 AATAAAAAATAGTAAAT-ATATATATATATAAATTAATAA
1 AAT-AAAAATA-AAAATAATATATATATATAAATTAATAA
* * *
9704619 AACTGATAATAAAAATAATATATATATAT-AATCTAAAAA
1 AA-TAAAAATAAAAATAATATATATATATAAAT-TAATAA
9704658 TAATAAAAATA
1 -AATAAAAATA
9704669 TATACTAAAG
Statistics
Matches: 75, Mismatches: 7, Indels: 16
0.77 0.07 0.16
Matches are distributed among these distances:
38 11 0.15
39 33 0.44
40 4 0.05
41 18 0.24
42 9 0.12
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (38 bp):
AATAAAAATAAAAATAATATATATATATAAATTAATAA
Found at i:9707389 original size:3 final size:3
Alignment explanation
Indices: 9707381--9707408 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
9707371 TTGTCTGGCC
9707381 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
9707409 GAAATGTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:9713169 original size:32 final size:31
Alignment explanation
Indices: 9713130--9713223 Score: 93
Period size: 32 Copynumber: 2.9 Consensus size: 31
9713120 CAAATTTTGT
9713130 CACTACCTCTCTTTGAGGCATCAAAGTCATA
1 CACTACCTCTCTTTGAGGCATCAAAGTCATA
* *
9713161 CTACTACCTCTCTTTGGGGC-TCCTAAATTCATA
1 C-ACTACCTCTCTTTGAGGCAT-C-AAAGTCATA
* *
9713194 CATTTACCTCTTTTTGAGGCAAT-AAAGTCA
1 CA-CTACCTCTCTTTGAGGC-ATCAAAGTCA
9713224 CACCCTTGTC
Statistics
Matches: 51, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
31 2 0.04
32 25 0.49
33 23 0.45
35 1 0.02
ACGTcount: A:0.27, C:0.27, G:0.13, T:0.34
Consensus pattern (31 bp):
CACTACCTCTCTTTGAGGCATCAAAGTCATA
Found at i:9716095 original size:20 final size:20
Alignment explanation
Indices: 9716058--9716109 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
9716048 CCAAAATGAC
*
9716058 TCAATTTC-ACATTCTAACA
1 TCAATTTCAACACTCTAACA
9716077 TCAATTTCAACACTCTAACA
1 TCAATTTCAACACTCTAACA
*
9716097 TAAATTTCCAACA
1 TCAATTT-CAACA
9716110 TAGTACAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 8 0.28
20 16 0.55
21 5 0.17
ACGTcount: A:0.40, C:0.27, G:0.00, T:0.33
Consensus pattern (20 bp):
TCAATTTCAACACTCTAACA
Found at i:9718758 original size:30 final size:30
Alignment explanation
Indices: 9718685--9718759 Score: 114
Period size: 30 Copynumber: 2.5 Consensus size: 30
9718675 CTAAGCACCA
** *
9718685 AAATAGTACAGTAACTTGGCCACCAAGGTT
1 AAATAGTACAGGGACATGGCCACCAAGGTT
9718715 AAATAGTACAGGGACATGGCCACCAAGGTT
1 AAATAGTACAGGGACATGGCCACCAAGGTT
*
9718745 AAATAGTATAGGGAC
1 AAATAGTACAGGGAC
9718760 CAAGGTAACC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.39, C:0.17, G:0.24, T:0.20
Consensus pattern (30 bp):
AAATAGTACAGGGACATGGCCACCAAGGTT
Found at i:9720274 original size:3 final size:3
Alignment explanation
Indices: 9720266--9720293 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
9720256 TTTGTCTGGC
9720266 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
9720294 GTTATTTACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:9721429 original size:15 final size:15
Alignment explanation
Indices: 9721407--9721445 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
9721397 TTTTTCATAG
*
9721407 TTTATGTAT-TCTAT
1 TTTATGTATGTATAT
9721421 TTATATGTATGTATAT
1 TT-TATGTATGTATAT
9721437 TTTATGTAT
1 TTTATGTAT
9721446 ATATTATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 2 0.09
15 14 0.64
16 6 0.27
ACGTcount: A:0.26, C:0.03, G:0.10, T:0.62
Consensus pattern (15 bp):
TTTATGTATGTATAT
Found at i:9721516 original size:13 final size:13
Alignment explanation
Indices: 9721500--9721545 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
9721490 ATGTGTATAT
9721500 ATTTATTGTATGC
1 ATTTATTGTATGC
*
9721513 ATTTATTGTAT-T
1 ATTTATTGTATGC
9721525 ATTATATATGTATGC
1 ATT-TAT-TGTATGC
9721540 ATTTAT
1 ATTTAT
9721546 ATAATGCTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
12 3 0.11
13 14 0.50
14 8 0.29
15 3 0.11
ACGTcount: A:0.28, C:0.04, G:0.11, T:0.57
Consensus pattern (13 bp):
ATTTATTGTATGC
Found at i:9730630 original size:13 final size:13
Alignment explanation
Indices: 9730612--9730645 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
9730602 CTATGTATAT
9730612 TATATATAAACTA
1 TATATATAAACTA
*
9730625 TATATATAACCTA
1 TATATATAAACTA
9730638 TAGTATAT
1 TA-TATAT
9730646 GTATACATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.47, C:0.09, G:0.03, T:0.41
Consensus pattern (13 bp):
TATATATAAACTA
Found at i:9730639 original size:20 final size:20
Alignment explanation
Indices: 9730596--9730671 Score: 59
Period size: 20 Copynumber: 4.0 Consensus size: 20
9730586 TACTTGTATG
* * *
9730596 TATAAACTATGTATATTATA
1 TATAAACTATATATATAACA
*
9730616 TATAAACTATATATATAACC
1 TATAAACTATATATATAACA
* *
9730636 TAT--AGTATATGTAT-ACA
1 TATAAACTATATATATAACA
* *
9730653 TGTAAACTATATATGTAAC
1 TATAAACTATATATATAAC
9730672 TTGTAGTTCT
Statistics
Matches: 42, Mismatches: 11, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
17 4 0.10
18 9 0.21
19 8 0.19
20 21 0.50
ACGTcount: A:0.45, C:0.09, G:0.07, T:0.39
Consensus pattern (20 bp):
TATAAACTATATATATAACA
Found at i:9730690 original size:92 final size:92
Alignment explanation
Indices: 9730532--9730742 Score: 386
Period size: 92 Copynumber: 2.3 Consensus size: 92
9730522 ACAATAGTTA
* *
9730532 ATATATGTAACCTATAGTATATATATACATGTAAACTATATATGTAACTTGTAGTACTTGTATGT
1 ATATATATAACCTATAGTATATGTATACATGTAAACTATATATGTAACTTGTAGTACTTGTATGT
9730597 ATAAACTATGTATATTATATATAAACT
66 ATAAACTATGTATATTATATATAAACT
* *
9730624 ATATATATAACCTATAGTATATGTATACATGTAAACTATATATGTAACTTGTAGTTCTTGTTTGT
1 ATATATATAACCTATAGTATATGTATACATGTAAACTATATATGTAACTTGTAGTACTTGTATGT
9730689 ATAAACTATGTATATTATATATAAACT
66 ATAAACTATGTATATTATATATAAACT
9730716 ATATATATAACCTATAGTATATGTATA
1 ATATATATAACCTATAGTATATGTATA
9730743 TATATAATCT
Statistics
Matches: 115, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
92 115 1.00
ACGTcount: A:0.40, C:0.09, G:0.09, T:0.42
Consensus pattern (92 bp):
ATATATATAACCTATAGTATATGTATACATGTAAACTATATATGTAACTTGTAGTACTTGTATGT
ATAAACTATGTATATTATATATAAACT
Found at i:9730722 original size:13 final size:13
Alignment explanation
Indices: 9730704--9730857 Score: 75
Period size: 13 Copynumber: 11.8 Consensus size: 13
9730694 CTATGTATAT
9730704 TATATATAAACTA
1 TATATATAAACTA
*
9730717 TATATATAACCTA
1 TATATATAAACTA
*
9730730 TAGTATAT---GTA
1 TA-TATATAAACTA
*
9730741 TATATATAATCTA
1 TATATATAAACTA
*
9730754 TTTATATGTAAACTA
1 --TATATATAAACTA
* *
9730769 TATATGTAATCTA
1 TATATATAAACTA
* *
9730782 TAGTATATATATTA
1 TA-TATATAAACTA
* * *
9730796 TGTATATATACAA
1 TATATATAAACTA
* * *
9730809 TCTATATATAGT-
1 TATATATAAACTA
9730821 T-TATATAAACTA
1 TATATATAAACTA
* *
9730833 TATATGTAACCTA
1 TATATATAAACTA
*
9730846 TAGTTTATAAAC
1 TA-TATATAAAC
9730858 AATAGTTTAT
Statistics
Matches: 108, Mismatches: 23, Indels: 19
0.72 0.15 0.13
Matches are distributed among these distances:
10 5 0.05
11 12 0.11
12 2 0.02
13 59 0.55
14 19 0.18
15 11 0.10
ACGTcount: A:0.43, C:0.08, G:0.06, T:0.44
Consensus pattern (13 bp):
TATATATAAACTA
Found at i:9730731 original size:20 final size:20
Alignment explanation
Indices: 9730688--9730731 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
9730678 TTCTTGTTTG
* * *
9730688 TATAAACTATGTATATTATA
1 TATAAACTATATATATAACA
*
9730708 TATAAACTATATATATAACC
1 TATAAACTATATATATAACA
9730728 TATA
1 TATA
9730732 GTATATGTAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.48, C:0.09, G:0.02, T:0.41
Consensus pattern (20 bp):
TATAAACTATATATATAACA
Found at i:9730742 original size:24 final size:23
Alignment explanation
Indices: 9730715--9730772 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 23
9730705 ATATATAAAC
9730715 TATATATATAACCTATAGTATATG
1 TATATATATAACCTAT-GTATATG
* *
9730739 TATATATATAATCTATTTATATG
1 TATATATATAACCTATGTATATG
*
9730762 TAAACTATATA
1 TATA-TATATA
9730773 TGTAATCTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
23 9 0.30
24 21 0.70
ACGTcount: A:0.43, C:0.07, G:0.05, T:0.45
Consensus pattern (23 bp):
TATATATATAACCTATGTATATG
Found at i:9730803 original size:92 final size:90
Alignment explanation
Indices: 9730532--9730801 Score: 287
Period size: 92 Copynumber: 3.0 Consensus size: 90
9730522 ACAATAGTTA
* * * * * *
9730532 ATATATGTAACCTATAGTATATATATACATGTAAACTATATATGTAACTTGTAGTACTTGTATGT
1 ATATATATAACCTATAGTATATGTATACATATAAACTATATATGTAACTTATAGT-CATGTATCT
*
9730597 ATAAACTATGTATATTATATATAAACT
65 AT-AACTATATATATTATATATAAACT
* * * * *
9730624 ATATATATAACCTATAGTATATGTATACATGTAAACTATATATGTAACTTGTAGTTCTTGTTTGT
1 ATATATATAACCTATAGTATATGTATACATATAAACTATATATGTAACTTATAG-TCATGTATCT
*
9730689 ATAAACTATGTATATTATATATAAACT
65 AT-AACTATATATATTATATATAAACT
* *
9730716 ATATATATAACCTATAGTATATGTATATATATAATCTATTTATATGTAAAC-TATA-T-ATGTAA
1 ATATATATAACCTATAGTATATGTATACATATAAACTA--TATATGT-AACTTATAGTCATGT-A
* *
9730778 TCTAT-AGTATATATATTATGTATA
62 TCTATAACTATATATATTATATATA
9730802 TATACAATCT
Statistics
Matches: 160, Mismatches: 13, Indels: 12
0.86 0.07 0.06
Matches are distributed among these distances:
90 16 0.10
91 3 0.02
92 127 0.79
93 1 0.01
94 10 0.06
95 3 0.02
ACGTcount: A:0.40, C:0.08, G:0.09, T:0.43
Consensus pattern (90 bp):
ATATATATAACCTATAGTATATGTATACATATAAACTATATATGTAACTTATAGTCATGTATCTA
TAACTATATATATTATATATAAACT
Found at i:9730904 original size:21 final size:21
Alignment explanation
Indices: 9730878--9730925 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
9730868 ATTAGTGTAC
* *
9730878 TATATAGTTTATAACCTATAG
1 TATATAATTTATAAACTATAG
9730899 TATATAATTTATAAACTATAG
1 TATATAATTTATAAACTATAG
*
9730920 TTTATA
1 TATATA
9730926 TTAATGTACT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.46
Consensus pattern (21 bp):
TATATAATTTATAAACTATAG
Found at i:9730986 original size:15 final size:15
Alignment explanation
Indices: 9730936--9730986 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
9730926 TTAATGTACT
*
9730936 ATATAGTTTATATTA
1 ATATAATTTATATTA
* *
9730951 ATGTTAA-TTATCTTA
1 AT-ATAATTTATATTA
9730966 ACTATAATTTATATTA
1 A-TATAATTTATATTA
9730982 ATATA
1 ATATA
9730987 GTATATAATT
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
15 17 0.61
16 11 0.39
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.51
Consensus pattern (15 bp):
ATATAATTTATATTA
Found at i:9730994 original size:22 final size:22
Alignment explanation
Indices: 9730968--9731107 Score: 97
Period size: 22 Copynumber: 6.2 Consensus size: 22
9730958 TTATCTTAAC
9730968 TATAATTTATATTAATATAGTA
1 TATAATTTATATTAATATAGTA
* *
9730990 TATAATTTGTATTAATGTAGTA
1 TATAATTTATATTAATATAGTA
* * * *
9731012 AATAGTTTATAAT-CTATAGT-
1 TATAATTTATATTAATATAGTA
* * *
9731032 T-TACATTAATATTAACATATTAA
1 TATA-ATTTATATTAATATAGT-A
*
9731055 CTATAGTTTATATTAATATAGTA
1 -TATAATTTATATTAATATAGTA
* *
9731078 TATAGTATTAATATTAATTATAGTC
1 TATA--ATTTATATTAA-TATAGTA
9731103 TATAA
1 TATAA
9731108 ACCATATACT
Statistics
Matches: 87, Mismatches: 22, Indels: 17
0.69 0.17 0.13
Matches are distributed among these distances:
19 2 0.02
20 6 0.07
21 9 0.10
22 33 0.38
23 2 0.02
24 23 0.26
25 12 0.14
ACGTcount: A:0.42, C:0.04, G:0.07, T:0.47
Consensus pattern (22 bp):
TATAATTTATATTAATATAGTA
Found at i:9731216 original size:31 final size:31
Alignment explanation
Indices: 9731167--9731226 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
9731157 TACTATATAA
9731167 TTTATAAAATATAGTTTATATTAATATTACT
1 TTTATAAAATATAGTTTATATTAATATTACT
* * *
9731198 TTTATAGACTATATTTTATATTAATATTA
1 TTTATAAAATATAGTTTATATTAATATTA
9731227 ATTACAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.53
Consensus pattern (31 bp):
TTTATAAAATATAGTTTATATTAATATTACT
Found at i:9731268 original size:15 final size:14
Alignment explanation
Indices: 9731243--9731339 Score: 76
Period size: 15 Copynumber: 6.8 Consensus size: 14
9731233 AATTATAAAC
9731243 TATAA-TATATTAA
1 TATAATTATATTAA
9731256 TATAAGTTATATTAA
1 TATAA-TTATATTAA
9731271 TATTAATTATATTAA
1 TA-TAATTATATTAA
*
9731286 TATTAATTATAAT-A
1 TA-TAATTATATTAA
9731300 TATATATTA-ATTATA
1 TATA-ATTATATTA-A
* * *
9731315 AATAGTT-TGTTAA
1 TATAATTATATTAA
9731328 TATAAATTATAT
1 TAT-AATTATAT
9731340 AGGGATGAAA
Statistics
Matches: 67, Mismatches: 8, Indels: 16
0.74 0.09 0.18
Matches are distributed among these distances:
13 12 0.18
14 15 0.22
15 37 0.55
16 3 0.04
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.49
Consensus pattern (14 bp):
TATAATTATATTAA
Found at i:9731275 original size:21 final size:22
Alignment explanation
Indices: 9731249--9731310 Score: 67
Period size: 21 Copynumber: 2.8 Consensus size: 22
9731239 AAACTATAAT
9731249 ATATTAATATA-AGTT-ATATTA
1 ATATTAATATATA-TTAATATTA
9731270 ATATTAAT-TATATTAATATTA
1 ATATTAATATATATTAATATTA
*
9731291 ATTATAATATATATATTAAT
1 A-TATTA-ATATATATTAAT
9731311 TATAAATAGT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
20 4 0.11
21 16 0.46
22 4 0.11
23 2 0.06
24 9 0.26
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (22 bp):
ATATTAATATATATTAATATTA
Found at i:9731306 original size:18 final size:19
Alignment explanation
Indices: 9731233--9731315 Score: 70
Period size: 18 Copynumber: 4.4 Consensus size: 19
9731223 ATTAATTACA
9731233 AATTATAAACTATAATATATT
1 AATTAT-AACTAT-ATATATT
*
9731254 AA-TATAAGTTATATTAATATT
1 AATTATAA-CTATA-T-ATATT
9731275 AATTAT-A-T-TA-ATATT
1 AATTATAACTATATATATT
9731290 AATTATAA-TATATATATT
1 AATTATAACTATATATATT
9731308 AATTATAA
1 AATTATAA
9731316 ATAGTTTGTT
Statistics
Matches: 54, Mismatches: 1, Indels: 17
0.75 0.01 0.24
Matches are distributed among these distances:
15 11 0.20
16 2 0.04
17 2 0.04
18 15 0.28
19 4 0.07
20 7 0.13
21 10 0.19
22 3 0.06
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (19 bp):
AATTATAACTATATATATT
Found at i:9731327 original size:18 final size:17
Alignment explanation
Indices: 9731270--9731339 Score: 67
Period size: 18 Copynumber: 4.2 Consensus size: 17
9731260 AGTTATATTA
*
9731270 ATATTAATTAT-ATTA-
1 ATATTAATTATAAATAT
9731285 ATATTAATTATAATATAT
1 ATATTAATTATAA-ATAT
9731303 ATATTAATTATAAATAGT
1 ATATTAATTATAAATA-T
* *
9731321 TTGTTAA-TATAAAT-T
1 ATATTAATTATAAATAT
9731336 ATAT
1 ATAT
9731340 AGGGATGAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
15 14 0.30
16 1 0.02
17 12 0.26
18 19 0.41
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (17 bp):
ATATTAATTATAAATAT
Found at i:9732100 original size:19 final size:19
Alignment explanation
Indices: 9732059--9732101 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
9732049 TTTGTAACCT
*
9732059 AACCCTAAACCTAAACTCA
1 AACCCTAAACCTAAACCCA
* *
9732078 AACCCTAAACTTAAACCCG
1 AACCCTAAACCTAAACCCA
9732097 AACCC
1 AACCC
9732102 GAACCCGAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.44, C:0.40, G:0.02, T:0.14
Consensus pattern (19 bp):
AACCCTAAACCTAAACCCA
Found at i:9737097 original size:17 final size:17
Alignment explanation
Indices: 9737059--9737125 Score: 71
Period size: 17 Copynumber: 3.9 Consensus size: 17
9737049 TGCAAAAATA
* *
9737059 CTGCATGTTACTGCCTA
1 CTGCTTGTTACTGCCTG
9737076 CTGCTTGTTACTGCCTG
1 CTGCTTGTTACTGCCTG
* * *
9737093 CTGCTTATTGCTGCTTG
1 CTGCTTGTTACTGCCTG
* *
9737110 CTGCCTGTTGCTGCCT
1 CTGCTTGTTACTGCCT
9737126 TGTAATTTAT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 42 1.00
ACGTcount: A:0.07, C:0.30, G:0.22, T:0.40
Consensus pattern (17 bp):
CTGCTTGTTACTGCCTG
Found at i:9737858 original size:45 final size:45
Alignment explanation
Indices: 9737798--9738084 Score: 389
Period size: 45 Copynumber: 6.4 Consensus size: 45
9737788 GCATTTTTAT
* ** *
9737798 TTATGGCATCCTTTCATGCTGATAAAACACCCATATGTATTTCAA
1 TTATGGCATCCTTTCATGCCGATAATGCACCCATATGCATTTCAA
*
9737843 TTATGGCATCTTTTCATGCCGATAATGCACCCATATGCATTTCAA
1 TTATGGCATCCTTTCATGCCGATAATGCACCCATATGCATTTCAA
*
9737888 TTATGGCATCCTTTCATGCCAATAATGCA-CCATATGCATTTCAA
1 TTATGGCATCCTTTCATGCCGATAATGCACCCATATGCATTTCAA
* *
9737932 TTAAGGCATCCTTTAATGCCGATAATGCACCCATATGCATTTCAA
1 TTATGGCATCCTTTCATGCCGATAATGCACCCATATGCATTTCAA
* *
9737977 TTATGGCATCCTTTAATGCCAATAATGCACCCATATGCATTTCAA
1 TTATGGCATCCTTTCATGCCGATAATGCACCCATATGCATTTCAA
* ** * * * * *
9738022 TTATGGAATCCTTTCATGCCTTTTATACA-CTATTATACATTTCAT
1 TTATGGCATCCTTTCATGCCGATAATGCACCCA-TATGCATTTCAA
9738067 TTATGGCATCCTTTCATG
1 TTATGGCATCCTTTCATG
9738085 ACACTTATGT
Statistics
Matches: 218, Mismatches: 22, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
44 43 0.20
45 175 0.80
ACGTcount: A:0.29, C:0.23, G:0.11, T:0.37
Consensus pattern (45 bp):
TTATGGCATCCTTTCATGCCGATAATGCACCCATATGCATTTCAA
Found at i:9737996 original size:134 final size:136
Alignment explanation
Indices: 9737757--9738041 Score: 403
Period size: 134 Copynumber: 2.1 Consensus size: 136
9737747 TTCATTGAGA
* ** * * * * * * *
9737757 GCATCCATTCATGCTTATAATGTACCATTGTGCATTTTTATTTATGGCATCCTTTCATGCTGATA
1 GCATCCTTTCATGCCAATAATGCACCATTATGCATTTTCAATTAAGGCATCCTTTAATGCCGATA
* * * *
9737822 AAACACCCATATGTATTTCAATTATGGCATCTTTTCATGCCGATAATGCACCCATATGCATTTCA
66 AAACACCCATATGCATTTCAATTATGGCATCCTTTAATGCCAATAATGCACCCATATGCATTTCA
9737887 ATTATG
131 ATTATG
9737893 GCATCCTTTCATGCCAATAATGCACCA-TATGCA-TTTCAATTAAGGCATCCTTTAATGCCGATA
1 GCATCCTTTCATGCCAATAATGCACCATTATGCATTTTCAATTAAGGCATCCTTTAATGCCGATA
**
9737956 ATGCACCCATATGCATTTCAATTATGGCATCCTTTAATGCCAATAATGCACCCATATGCATTTCA
66 AAACACCCATATGCATTTCAATTATGGCATCCTTTAATGCCAATAATGCACCCATATGCATTTCA
9738021 ATTATG
131 ATTATG
*
9738027 GAATCCTTTCATGCC
1 GCATCCTTTCATGCC
9738042 TTTTATACAC
Statistics
Matches: 132, Mismatches: 17, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
134 104 0.79
135 5 0.04
136 23 0.17
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.36
Consensus pattern (136 bp):
GCATCCTTTCATGCCAATAATGCACCATTATGCATTTTCAATTAAGGCATCCTTTAATGCCGATA
AAACACCCATATGCATTTCAATTATGGCATCCTTTAATGCCAATAATGCACCCATATGCATTTCA
ATTATG
Found at i:9738266 original size:81 final size:81
Alignment explanation
Indices: 9738159--9738381 Score: 365
Period size: 81 Copynumber: 2.8 Consensus size: 81
9738149 TAGCCTTTCC
* * * * *
9738159 TCTAACTTGCGTAATTGACACTTTTCTGTCAAATGCACAACTAGGCCATTAATCTTTTACTCAAT
1 TCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCCATTAATCTTTTACTCAAC
*
9738224 GGTATTTAACCGTTCA
66 GGTATTTAACCATTCA
9738240 TCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCCATTAATCTTTTACTCAAC
1 TCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCCATTAATCTTTTACTCAAC
*
9738305 GGTATTTCACCATTCA
66 GGTATTTAACCATTCA
* *
9738321 TCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTGTACT
1 TCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCCATTAATCTTTTACT
9738382 TTTGGAATAG
Statistics
Matches: 133, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
81 133 1.00
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.34
Consensus pattern (81 bp):
TCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCCATTAATCTTTTACTCAAC
GGTATTTAACCATTCA
Found at i:9739959 original size:24 final size:24
Alignment explanation
Indices: 9739907--9739984 Score: 149
Period size: 24 Copynumber: 3.3 Consensus size: 24
9739897 TTATTTTTTC
9739907 TTTACATAAATTAAACTATA-TAA
1 TTTACATAAATTAAACTATATTAA
9739930 TTTACATAAATTAAACTATATTAA
1 TTTACATAAATTAAACTATATTAA
9739954 TTTACATAAATTAAACTATATTAA
1 TTTACATAAATTAAACTATATTAA
9739978 TTTACAT
1 TTTACAT
9739985 TTAATCATTG
Statistics
Matches: 54, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
23 20 0.37
24 34 0.63
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.42
Consensus pattern (24 bp):
TTTACATAAATTAAACTATATTAA
Found at i:9739979 original size:14 final size:13
Alignment explanation
Indices: 9739915--9739979 Score: 52
Period size: 12 Copynumber: 5.3 Consensus size: 13
9739905 TCTTTACATA
9739915 AATTAAACTATAT
1 AATTAAACTATAT
*
9739928 AATT-TAC-ATA-
1 AATTAAACTATAT
9739938 AATTAAACTATATT
1 AATTAAACTATA-T
*
9739952 AATT-TAC-ATA-
1 AATTAAACTATAT
9739962 AATTAAACTATATT
1 AATTAAACTATA-T
9739976 AATT
1 AATT
9739980 TACATTTAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 15
0.68 0.07 0.25
Matches are distributed among these distances:
10 8 0.20
11 7 0.17
12 11 0.28
13 6 0.15
14 8 0.20
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.42
Consensus pattern (13 bp):
AATTAAACTATAT
Found at i:9740240 original size:16 final size:16
Alignment explanation
Indices: 9740192--9740254 Score: 67
Period size: 16 Copynumber: 3.9 Consensus size: 16
9740182 TTTTGTCCAT
9740192 GGTAATATAT-AAGTCA
1 GGTAA-ATATCAAGTCA
*
9740208 GGTAAATGTCAAGTCA
1 GGTAAATATCAAGTCA
9740224 GGTAAATATCATA-TCA
1 GGTAAATATCA-AGTCA
* *
9740240 GGTCAATAACAAGTC
1 GGTAAATATCAAGTC
9740255 GGATCATTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
15 4 0.10
16 35 0.88
17 1 0.03
ACGTcount: A:0.41, C:0.13, G:0.19, T:0.27
Consensus pattern (16 bp):
GGTAAATATCAAGTCA
Found at i:9755132 original size:32 final size:32
Alignment explanation
Indices: 9755007--9755133 Score: 130
Period size: 32 Copynumber: 4.0 Consensus size: 32
9754997 CGACATGTGA
* * * * *
9755007 AACAATGTTGTGCATTTTCTGAATACAAAATT
1 AACACTGTTGTACATTATCTGAATACAACACT
* * *
9755039 GACACTGTTGTGA-ATTATCTAAATACAACAAT
1 AACACTGTTGT-ACATTATCTGAATACAACACT
* * * *
9755071 TACACTGATGTGCATTATCTGAATGCAACACT
1 AACACTGTTGTACATTATCTGAATACAACACT
9755103 AACACTGTTGTACATTATCTGAATACAACAC
1 AACACTGTTGTACATTATCTGAATACAACAC
9755134 ACTACTAGTA
Statistics
Matches: 76, Mismatches: 17, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
32 76 1.00
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (32 bp):
AACACTGTTGTACATTATCTGAATACAACACT
Found at i:9756798 original size:20 final size:21
Alignment explanation
Indices: 9756771--9756823 Score: 60
Period size: 19 Copynumber: 2.7 Consensus size: 21
9756761 AGAGATAATG
9756771 AAGAAGAAAAATATGAA-GAA
1 AAGAAGAAAAATATGAATGAA
* *
9756791 AGGAAGAAGAAT-T-AATGAA
1 AAGAAGAAAAATATGAATGAA
9756810 AAGAAG-AAAATATG
1 AAGAAGAAAAATATG
9756824 GGAGAACCCA
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
18 6 0.23
19 10 0.38
20 10 0.38
ACGTcount: A:0.64, C:0.00, G:0.23, T:0.13
Consensus pattern (21 bp):
AAGAAGAAAAATATGAATGAA
Found at i:9759751 original size:15 final size:15
Alignment explanation
Indices: 9759731--9759765 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
9759721 GAATCTGTTA
9759731 TTGGTATCAGCGCTC
1 TTGGTATCAGCGCTC
9759746 TTGGTATCAGCGCTC
1 TTGGTATCAGCGCTC
9759761 TTGGT
1 TTGGT
9759766 TTATTTTAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.11, C:0.23, G:0.29, T:0.37
Consensus pattern (15 bp):
TTGGTATCAGCGCTC
Found at i:9766500 original size:26 final size:26
Alignment explanation
Indices: 9766471--9766542 Score: 144
Period size: 26 Copynumber: 2.8 Consensus size: 26
9766461 TTTTCGTTTT
9766471 TTAAAATTTTATAAATTTATTATCTA
1 TTAAAATTTTATAAATTTATTATCTA
9766497 TTAAAATTTTATAAATTTATTATCTA
1 TTAAAATTTTATAAATTTATTATCTA
9766523 TTAAAATTTTATAAATTTAT
1 TTAAAATTTTATAAATTTAT
9766543 CCATTTAATA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 46 1.00
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (26 bp):
TTAAAATTTTATAAATTTATTATCTA
Found at i:9766501 original size:16 final size:16
Alignment explanation
Indices: 9766482--9766527 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
9766472 TAAAATTTTA
9766482 TAAATTTATTATCTAT
1 TAAATTTATTATCTAT
9766498 TAAA---ATT-T-TA-
1 TAAATTTATTATCTAT
9766508 TAAATTTATTATCTAT
1 TAAATTTATTATCTAT
9766524 TAAA
1 TAAA
9766528 ATTTTATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 12
0.67 0.00 0.33
Matches are distributed among these distances:
10 4 0.17
11 2 0.08
12 1 0.04
13 6 0.25
14 1 0.04
15 2 0.08
16 8 0.33
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.52
Consensus pattern (16 bp):
TAAATTTATTATCTAT
Found at i:9768696 original size:23 final size:23
Alignment explanation
Indices: 9768616--9768706 Score: 105
Period size: 23 Copynumber: 4.0 Consensus size: 23
9768606 GTGTCACATA
*
9768616 TTTGTCCCGAAGGACCACATAGT
1 TTTGTCCAGAAGGACCACATAGT
*
9768639 TTTGTCCTA-AAGGACCACATAAT
1 TTTGTCC-AGAAGGACCACATAGT
*
9768662 TTTGTCCAGAAGAACCACATAGT
1 TTTGTCCAGAAGGACCACATAGT
* *
9768685 TTTGT-AACGAAGGATCACATAG
1 TTTGTCCA-GAAGGACCACATAG
9768707 AACCCTCGAC
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
22 2 0.03
23 56 0.97
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (23 bp):
TTTGTCCAGAAGGACCACATAGT
Found at i:9768704 original size:46 final size:45
Alignment explanation
Indices: 9768609--9768705 Score: 117
Period size: 46 Copynumber: 2.2 Consensus size: 45
9768599 CATTGAAGTG
* * *
9768609 TCACAT-ATTTGTCCCGAAGGACCACATAGTTTTGTCCTAAAGGA
1 TCACATAATTTGTCCAGAAGAACCACATAGTTTTGTACTAAAGGA
* *
9768653 CCACATAATTTTGTCCAGAAGAACCACATAGTTTTGTAAC-GAAGGA
1 TCACATAA-TTTGTCCAGAAGAACCACATAGTTTTGT-ACTAAAGGA
9768699 TCACATA
1 TCACATA
9768706 GAACCCTCGA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
44 5 0.11
45 1 0.02
46 37 0.84
47 1 0.02
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (45 bp):
TCACATAATTTGTCCAGAAGAACCACATAGTTTTGTACTAAAGGA
Found at i:9775453 original size:23 final size:23
Alignment explanation
Indices: 9775356--9775453 Score: 146
Period size: 23 Copynumber: 4.3 Consensus size: 23
9775346 CACTAAAGTG
9775356 CCACATA--TTTGTCCCGAAGGA
1 CCACATAGTTTTGTCCCGAAGGA
* *
9775377 CCACATAATTTTGTCCCGGAGGA
1 CCACATAGTTTTGTCCCGAAGGA
9775400 CCACATAGTTTTGTCCCGAAGGA
1 CCACATAGTTTTGTCCCGAAGGA
* *
9775423 CCACATAGTTTTGTTCCGAATGA
1 CCACATAGTTTTGTCCCGAAGGA
9775446 CCACATAG
1 CCACATAG
9775454 AACCCTTGAC
Statistics
Matches: 70, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
21 7 0.10
23 63 0.90
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.27
Consensus pattern (23 bp):
CCACATAGTTTTGTCCCGAAGGA
Found at i:9783966 original size:20 final size:20
Alignment explanation
Indices: 9783941--9783983 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
9783931 TCTAAGAGCT
*
9783941 CATTTAGGATCATATAGATG
1 CATTTAGGAGCATATAGATG
*
9783961 CATTTAGGAGCATATAGTTG
1 CATTTAGGAGCATATAGATG
9783981 CAT
1 CAT
9783984 GTGGTGAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.35
Consensus pattern (20 bp):
CATTTAGGAGCATATAGATG
Found at i:9797749 original size:15 final size:15
Alignment explanation
Indices: 9797729--9797758 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
9797719 ACATTACTAA
9797729 AATATATCTATATTT
1 AATATATCTATATTT
*
9797744 AATATATGTATATTT
1 AATATATCTATATTT
9797759 GGTAGACATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.53
Consensus pattern (15 bp):
AATATATCTATATTT
Found at i:9800718 original size:65 final size:65
Alignment explanation
Indices: 9800649--9800791 Score: 166
Period size: 65 Copynumber: 2.2 Consensus size: 65
9800639 TACACTAGGG
* * ** *
9800649 GTGCATCGGTACACT-AATTACATTCGATGTTTCAA-AAGAGCCTGGAGTGCATCGATGCATGGT
1 GTGCATCGGTACACTAAAGTACATTCCATGTTTCAATAA-AGCCAAGAGTGCATCGATGCAT-GA
9800712 CT
64 CT
* ** *
9800714 GTGCATCGGTACA-TAAAGTGCATTCCATGTTTCAATAAATTCAAGAGTTCATCGATGCATGACT
1 GTGCATCGGTACACTAAAGTACATTCCATGTTTCAATAAAGCCAAGAGTGCATCGATGCATGACT
9800778 GTGCATCGGTACAC
1 GTGCATCGGTACAC
9800792 AAAATGCATT
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
64 17 0.26
65 47 0.71
66 2 0.03
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.29
Consensus pattern (65 bp):
GTGCATCGGTACACTAAAGTACATTCCATGTTTCAATAAAGCCAAGAGTGCATCGATGCATGACT
Found at i:9809283 original size:65 final size:64
Alignment explanation
Indices: 9809214--9809337 Score: 178
Period size: 65 Copynumber: 1.9 Consensus size: 64
9809204 ATTACATTCG
** *
9809214 ATGTTTCAA-AAGAACCTGGAGTGCATCGATGCATGGTTTGTGCATCGGTACATAAAATGCATTA
1 ATGTTTCAATAA-AACCAAGAGTGCATCGATGCATGG-TTGTGCATCGGTACACAAAATGCATTA
9809278 A
64 A
**
9809279 ATGTTTCAATAAATTCAAGAGTGCATCGATGCATGGTTGTGCATCGGTACACAAAATGC
1 ATGTTTCAATAAAACCAAGAGTGCATCGATGCATGGTTGTGCATCGGTACACAAAATGC
9809338 CTTCGAAATA
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
64 22 0.42
65 29 0.55
66 2 0.04
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (64 bp):
ATGTTTCAATAAAACCAAGAGTGCATCGATGCATGGTTGTGCATCGGTACACAAAATGCATTAA
Found at i:9811353 original size:13 final size:13
Alignment explanation
Indices: 9811335--9811368 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
9811325 AATGGGCAAT
9811335 TTTGAAAACTG-TG
1 TTTGAAAAC-GATG
9811348 TTTGAAAACGATG
1 TTTGAAAACGATG
9811361 TTTGAAAA
1 TTTGAAAA
9811369 TCAATATGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 1 0.05
13 19 0.95
ACGTcount: A:0.38, C:0.06, G:0.21, T:0.35
Consensus pattern (13 bp):
TTTGAAAACGATG
Found at i:9811902 original size:20 final size:20
Alignment explanation
Indices: 9811826--9811905 Score: 63
Period size: 20 Copynumber: 3.9 Consensus size: 20
9811816 AAACCCGACG
*
9811826 AGTGTATCAATGCAC-TACAT
1 AGTGTATCGATGCACAT-CAT
* * *
9811846 AGTATATCGATGAACATTCAA
1 AGTGTATCGATGCACA-TCAT
* *
9811867 AGAATGCATCGGTGCACATCAT
1 AG--TGTATCGATGCACATCAT
9811889 AGTGTATCGATGCACAT
1 AGTGTATCGATGCACAT
9811906 TCAAGGGATA
Statistics
Matches: 45, Mismatches: 11, Indels: 8
0.70 0.17 0.12
Matches are distributed among these distances:
20 25 0.56
21 4 0.09
22 6 0.13
23 10 0.22
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.28
Consensus pattern (20 bp):
AGTGTATCGATGCACATCAT
Found at i:9815570 original size:65 final size:64
Alignment explanation
Indices: 9815456--9815611 Score: 172
Period size: 65 Copynumber: 2.4 Consensus size: 64
9815446 ATAAAACTTA
* * * * * *
9815456 GTGCATCGGTACACT-AATTAAATTTGATGTTTCAAAAGTGCCATGAGTGCATCGATGCATGGTC
1 GTGCATCGGTACA-TAAAATGAATTCGATGTTTCAAAAATGCAATGAGTGCATCAATGCATGGT-
9815520 T
64 T
* * *
9815521 GTGCATCGGTACATAAAGTGAATTCGATGTTTCAATAAATTCAAT-AGTGCATTAATGCATGGTT
1 GTGCATCGGTACATAAAATGAATTCGATGTTTCAA-AAATGCAATGAGTGCATCAATGCATGGTT
* *
9815585 GTGCATCGGTACACAAAATGCATTCGA
1 GTGCATCGGTACATAAAATGAATTCGA
9815612 AATAGGGTGT
Statistics
Matches: 78, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
64 26 0.33
65 46 0.59
66 6 0.08
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (64 bp):
GTGCATCGGTACATAAAATGAATTCGATGTTTCAAAAATGCAATGAGTGCATCAATGCATGGTT
Found at i:9822148 original size:38 final size:36
Alignment explanation
Indices: 9821986--9822159 Score: 167
Period size: 38 Copynumber: 4.7 Consensus size: 36
9821976 ATTTTTTAAC
* * *
9821986 TATGTTTTCAAAAATGTGTTTTCAAAACTTTATAATATA
1 TATGTTTTTAAAAA-ATGTTTTCAAAACTATAT-AT-TA
* *
9822025 TAT-TTTTTTAAAAATGTTTTCAAAAC--CATATTA
1 TATGTTTTTAAAAAATGTTTTCAAAACTATATATTA
* * *
9822058 TAT-ATTTTCAAAAATCGATTTCTAAAAACTATATATTA
1 TATGTTTTTAAAAAAT-G-TTT-TCAAAACTATATATTA
9822096 TATGTTTTTAAAAAATGTTTTCTAAAATCTATATATTA
1 TATGTTTTTAAAAAATGTTTTC-AAAA-CTATATATTA
*
9822134 TATGTTTTTAAAAAATATTTTCAAAA
1 TATGTTTTTAAAAAATGTTTTCAAAA
9822160 ATTACATTAT
Statistics
Matches: 115, Mismatches: 12, Indels: 18
0.79 0.08 0.12
Matches are distributed among these distances:
33 15 0.13
34 3 0.03
35 5 0.04
36 7 0.06
37 23 0.20
38 49 0.43
39 13 0.11
ACGTcount: A:0.41, C:0.07, G:0.05, T:0.47
Consensus pattern (36 bp):
TATGTTTTTAAAAAATGTTTTCAAAACTATATATTA
Found at i:9825046 original size:39 final size:39
Alignment explanation
Indices: 9825003--9825082 Score: 133
Period size: 39 Copynumber: 2.1 Consensus size: 39
9824993 TTTCTCCGTT
9825003 CCAAGGTCGTCTCCAGATGCTGCCTTTGGTTCTTCATTA
1 CCAAGGTCGTCTCCAGATGCTGCCTTTGGTTCTTCATTA
* **
9825042 CCAAGGTCGTCTCTAGATGCTGTTTTTGGTTCTTCATTA
1 CCAAGGTCGTCTCCAGATGCTGCCTTTGGTTCTTCATTA
9825081 CC
1 CC
9825083 TCTTTTTATT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.15, C:0.26, G:0.20, T:0.39
Consensus pattern (39 bp):
CCAAGGTCGTCTCCAGATGCTGCCTTTGGTTCTTCATTA
Found at i:9833117 original size:607 final size:609
Alignment explanation
Indices: 9831956--9833180 Score: 2268
Period size: 607 Copynumber: 2.0 Consensus size: 609
9831946 AGGGTGAAAA
9831956 GAGCCTGAATCGTTTCAAGAGCAGTTGAACTCAGTGCATACCGAGAGTCAGACATGGTGTAAGTT
1 GAGCCTGAATCGTTTCAAGAGCAGTTGAACTCAGTGCATACCGAGAGTCAGACATGGTGTAAGTT
9832021 GATGAGTCTTAGACATGATGAGATATTGAAGGATATGCGAGTCAGTTCAAGGAATACATGCTCAA
66 -ATGAGTCTTA-ACATGATGAGATATTGAAGGATATGCGAGTCAGTTCAAGGAATACATGCTCAA
9832086 AGTCCCAGATTAGTCTAAAGAAGATGCATTCTTCACCTTCACAAATGGATTGAAGCCATGGGAAA
129 AGTCCCAGATTAGTCTAAAGAAGATGCATTCTTCACCTTCACAAATGGATTGAAGCCATGGGAAA
9832151 AGATGGTGACGGAGAAAAGGGGAATCAAGGAGTTGTCTAAAACCTTGATAGCCGCCGAGTCCATC
194 AGATGGTGACGGAGAAAAGGGGAATCAAGGAGTTGTCTAAAACCTTGATAGCCGCCGAGTCCATC
9832216 ATAGAACTTGGAGTCAAGAAGATGTCCAAGCTGAAGTGAAAGCTGTGGGTAGTGGCAAAAGAATC
259 ATAGAACTT---GTCAAGAAGATGTCCAAGCT--A-TGAAAGCTGTGGGTAGTGGCAAAAGAATC
9832281 CGAGAGGGTTAGTCAGTGATGAGGAGAAAGGCTCTTCGAGTGGAGTTTGTTCGAATGGTGAACAT
318 CGAGAGGGTTAGTCAGTGATGAGGAGAAAGGCTCTTCGAGTGGAGTTTGTTCGAATGGTGAACAT
9832346 TGAGCACTGATCGTTCAAGTGGTGTTCACATGTCTAGAGAAGACATGTGTGATGTTAGAACAAGT
383 TGAGCACTGATCGTTCAAGTGGTGTTCACATGTCTAGAGAAGACATGTGTGATGTTAGAACAAGT
9832411 AAAGCTGACATGTTCCTTAAGTCGAGGGAAAGAAATGAGCAAACAGAAGGCCACCAAAGTAAGGG
448 AAAGCTGACATGTTCCTTAAGTCGAGGGAAAGAAATGAGCAAACAGAAGGCCACCAAAGTAAGGG
9832476 GTCACAAGAGTTGGAAGCTTGCCTGGATAAAGTTGAGTGGTCCGAGAAGA-GGACAAGCCCAAGA
513 GTCACAAGAGTTGGAAGCTTGCCTGGATAAAGTTGAGTGGTCCGAGAAGATGGACAAGCCCAAGA
9832540 TCGAGTTATCCAAATACATGGGTAAAGATAGG
578 TCGAGTTATCCAAATACATGGGTAAAGATAGG
9832572 GAGCCTGAATCGTTTCAAGAGCAGTTGAACTCAGTGCATACCGAGAGTCAGACATGGTGTAAG-T
1 GAGCCTGAATCGTTTCAAGAGCAGTTGAACTCAGTGCATACCGAGAGTCAGACATGGTGTAAGTT
9832636 -TGAGTCTT-ACATGATGAGATATTGAAGGAGTATGCGAGTCAGTTCAAGGAATACATGCTCAAA
66 ATGAGTCTTAACATGATGAGATATTGAAGGA-TATGCGAGTCAGTTCAAGGAATACATGCTCAAA
9832699 GTCCCAGATTAGTCTAAAGAAGATGCATTCTTCACCTTCACAAATGGATTGAAGCCATGGGAAAA
130 GTCCCAGATTAGTCTAAAGAAGATGCATTCTTCACCTTCACAAATGGATTGAAGCCATGGGAAAA
9832764 GATGGTGACGGAG-AAAGGGGAATCAAGGAGTTGTCTAAAACCTTGATAGCCGCCGAGTCCATCA
195 GATGGTGACGGAGAAAAGGGGAATCAAGGAGTTGTCTAAAACCTTGATAGCCGCCGAGTCCATCA
9832828 TAGAACTT-TCAAGAAGATGTCCAAGCT-TGAAAGCTGTGGGTAGTGGC-AAAGAATCCGAGATG
260 TAGAACTTGTCAAGAAGATGTCCAAGCTATGAAAGCTGTGGGTAGTGGCAAAAGAATCC--GA-G
9832890 AGGGTTAGTCCAGTGATGAGGAGAAAGGCTCTTCGAGTGGAGTTTGTTCGAATGGTGAACATTTG
322 AGGGTTAGT-CAGTGATGAGGAGAAAGGCTCTTCGAGTGGAGTTTGTTCGAATGGTGAACA-TTG
9832955 AGCACTGATCGTTCAAGTGGTGTTCACATGTCTAGAGAAGACATGTGTGATGTTAGAACAAGTAA
385 AGCACTGATCGTTCAAGTGGTGTTCACATGTCTAGAGAAGACATGTGTGATGTTAGAACAAGTAA
9833020 AGCTGACATGTTCCTTAAGTCGAGGGAAAGAAATGAGCAAACAGAAGGCCACCAAAGTAAGGGGT
450 AGCTGACATGTTCCTTAAGTCGAGGGAAAGAAATGAGCAAACAGAAGGCCACCAAAGTAAGGGGT
9833085 CACAAGAGTTGGAAGCTTGCCTGGATAAAGTTGAGTGGTCCGAGAAGATGGACAAGCCCAAGATC
515 CACAAGAGTTGGAAGCTTGCCTGGATAAAGTTGAGTGGTCCGAGAAGATGGACAAGCCCAAGATC
9833150 GAGTTATCCAAATACATGGGTAAAGATAGG
580 GAGTTATCCAAATACATGGGTAAAGATAGG
9833180 G
1 G
9833181 TCAATGAGGT
Statistics
Matches: 602, Mismatches: 0, Indels: 22
0.96 0.00 0.04
Matches are distributed among these distances:
602 9 0.01
603 20 0.03
604 2 0.00
605 10 0.02
606 51 0.08
607 200 0.33
608 47 0.08
611 80 0.13
612 111 0.18
613 8 0.01
615 1 0.00
616 63 0.10
ACGTcount: A:0.33, C:0.16, G:0.29, T:0.23
Consensus pattern (609 bp):
GAGCCTGAATCGTTTCAAGAGCAGTTGAACTCAGTGCATACCGAGAGTCAGACATGGTGTAAGTT
ATGAGTCTTAACATGATGAGATATTGAAGGATATGCGAGTCAGTTCAAGGAATACATGCTCAAAG
TCCCAGATTAGTCTAAAGAAGATGCATTCTTCACCTTCACAAATGGATTGAAGCCATGGGAAAAG
ATGGTGACGGAGAAAAGGGGAATCAAGGAGTTGTCTAAAACCTTGATAGCCGCCGAGTCCATCAT
AGAACTTGTCAAGAAGATGTCCAAGCTATGAAAGCTGTGGGTAGTGGCAAAAGAATCCGAGAGGG
TTAGTCAGTGATGAGGAGAAAGGCTCTTCGAGTGGAGTTTGTTCGAATGGTGAACATTGAGCACT
GATCGTTCAAGTGGTGTTCACATGTCTAGAGAAGACATGTGTGATGTTAGAACAAGTAAAGCTGA
CATGTTCCTTAAGTCGAGGGAAAGAAATGAGCAAACAGAAGGCCACCAAAGTAAGGGGTCACAAG
AGTTGGAAGCTTGCCTGGATAAAGTTGAGTGGTCCGAGAAGATGGACAAGCCCAAGATCGAGTTA
TCCAAATACATGGGTAAAGATAGG
Found at i:9841648 original size:2 final size:2
Alignment explanation
Indices: 9841641--9841675 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
9841631 TATGTAGAAT
9841641 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
9841676 TGTACAAAAA
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:9844013 original size:79 final size:79
Alignment explanation
Indices: 9843875--9844020 Score: 229
Period size: 79 Copynumber: 1.8 Consensus size: 79
9843865 CTAAAACGAA
* * * *
9843875 CATAAAAGAATAACGCATATGGGTGCATTATTGGCATGAAAGGATTCCATAGCTAAAATGTATAT
1 CATAAAACAATAACGCATATGGGTGCATTATTGGCATGAAAGGATGCCAGAGCTAAAATGCATAT
9843940 GGATACATTGTCAG
66 GGATACATTGTCAG
* * *
9843954 CATAAAACAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCAGAGTTGAAATGCATAT
1 CATAAAACAATAACGCATATGGGTGCATTATTGGCATGAAAGGATGCCAGAGCTAAAATGCATAT
9844019 GG
66 GG
9844021 GTGCATTATC
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
79 60 1.00
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.27
Consensus pattern (79 bp):
CATAAAACAATAACGCATATGGGTGCATTATTGGCATGAAAGGATGCCAGAGCTAAAATGCATAT
GGATACATTGTCAG
Found at i:9844053 original size:45 final size:45
Alignment explanation
Indices: 9844004--9844257 Score: 281
Period size: 45 Copynumber: 5.8 Consensus size: 45
9843994 AGGATGCCAG
*
9844004 AGTTGAAATGCATATGGGTGCATTATCAACAGAGAAA-TATACGAT
1 AGTTGAAATGCATATGGGTGCATTATCAACAGA-AAAGTATACTAT
* * * *
9844049 AGTTGAAATGTATATGGGTACATTATCAACATAAAAGTATACAAT
1 AGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATACTAT
* ** *
9844094 AGTTGAAATGCATATGGGTGCATTGTCAACAGAAAAGTATGTTAG
1 AGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATACTAT
* * * *
9844139 AGTTGAAATGTATATGGGTACATTATCAACTGAAAAGTATATTAT
1 AGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATACTAT
** *
9844184 AGTTGAAATG-A-A----CCCA-TATCAACTGAAAAGTATACTAT
1 AGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATACTAT
* *
9844222 AATTGAAATGCATATGGGTGCATTATCAAAAGAAAA
1 AGTTGAAATGCATATGGGTGCATTATCAACAGAAAA
9844258 ATATGTTATA
Statistics
Matches: 175, Mismatches: 26, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
38 30 0.17
39 3 0.02
40 1 0.01
43 1 0.01
44 6 0.03
45 134 0.77
ACGTcount: A:0.42, C:0.10, G:0.19, T:0.29
Consensus pattern (45 bp):
AGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATACTAT
Found at i:9844833 original size:2 final size:2
Alignment explanation
Indices: 9844826--9844855 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
9844816 TGAAGGGAGG
9844826 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9844856 CAACAAGGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9846685 original size:27 final size:27
Alignment explanation
Indices: 9846655--9846715 Score: 122
Period size: 27 Copynumber: 2.3 Consensus size: 27
9846645 TTGATTTAAC
9846655 TCATCTTGCATAGCCAATATCCAAAAT
1 TCATCTTGCATAGCCAATATCCAAAAT
9846682 TCATCTTGCATAGCCAATATCCAAAAT
1 TCATCTTGCATAGCCAATATCCAAAAT
9846709 TCATCTT
1 TCATCTT
9846716 TTAATGTTTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.34, C:0.26, G:0.07, T:0.33
Consensus pattern (27 bp):
TCATCTTGCATAGCCAATATCCAAAAT
Found at i:9847130 original size:243 final size:243
Alignment explanation
Indices: 9846702--9847168 Score: 744
Period size: 243 Copynumber: 1.9 Consensus size: 243
9846692 TAGCCAATAT
*
9846702 CCAAAATTCATCTTTTAATGTTTCTTTGATATTCTTAAGCTCTATGCATGAGATATATAAAACAA
1 CCAAAATTCATCTTTTAATGTTTCTTTGATATTCTTAAGATCTATGCATGAGATATATAAAACAA
* * *
9846767 ATTACAAGTATTTCTAAGAGATGATCTAGTAGTTACCCCTTTAGATGGATCGCCTAAAATCTCAC
66 ATTACAAGTATTTCTAAGAGAAGATCTAGTAGTTACCCCTTTAGATGAATCACCTAAAATCTCAC
*
9846832 CATCCTTGACATAGTTGTACTCCTTTGGGCATGATACTTCACTTTCCTCTTGAATAAGCTCCTCA
131 CATCCTTGACATAGTTGTACTCCCTTGGGCATGATACTTCACTTTCCTCTTGAATAAGCTCCTCA
*
9846897 AG-TGCTTCTTGTGTTTGTTCTTGCATATCTTATTTAGATGTTGGTTTA
196 AGAT-ATTCTTGTGTTTGTTCTTGCATATCTTATTTAGATGTTGGTTTA
* *
9846945 CCAAAATTTATCTTTTAATGTTTCTTTGATATTCTTAATATCTATGCATGAGATATATGCAAAA-
1 CCAAAATTCATCTTTTAATGTTTCTTTGATATTCTTAAGATCTATGCATGAGATATAT--AAAAC
* * *
9847009 AAATATA-AA-TATTTCTAAGAGAAGATCTAGTAGTTACCCCTTTGGATGAATCACTTAAATTCT
64 AAAT-TACAAGTATTTCTAAGAGAAGATCTAGTAGTTACCCCTTTAGATGAATCACCTAAAATCT
* * *
9847072 CACCATCCTTGACATTGTTGTACTCCCTTGGGCATGATACTTCTCTTTCCTCTTGAATATGCTCC
128 CACCATCCTTGACATAGTTGTACTCCCTTGGGCATGATACTTCACTTTCCTCTTGAATAAGCTCC
9847137 TCAAGATATTCTTGTGTTTGTTCTTGCATATC
193 TCAAGATATTCTTGTGTTTGTTCTTGCATATC
9847169 CTCTGTAGAT
Statistics
Matches: 206, Mismatches: 14, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
243 193 0.94
244 7 0.03
245 6 0.03
ACGTcount: A:0.27, C:0.19, G:0.13, T:0.40
Consensus pattern (243 bp):
CCAAAATTCATCTTTTAATGTTTCTTTGATATTCTTAAGATCTATGCATGAGATATATAAAACAA
ATTACAAGTATTTCTAAGAGAAGATCTAGTAGTTACCCCTTTAGATGAATCACCTAAAATCTCAC
CATCCTTGACATAGTTGTACTCCCTTGGGCATGATACTTCACTTTCCTCTTGAATAAGCTCCTCA
AGATATTCTTGTGTTTGTTCTTGCATATCTTATTTAGATGTTGGTTTA
Found at i:9852595 original size:16 final size:16
Alignment explanation
Indices: 9852562--9852601 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
9852552 AACGAGGCAT
**
9852562 GCAACGAGCTTAGTGA
1 GCAACGAGCTTACCGA
*
9852578 GCAATGAGCTTACCGA
1 GCAACGAGCTTACCGA
9852594 GCAACGAG
1 GCAACGAG
9852602 TCGAGTAACA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.33, C:0.23, G:0.30, T:0.15
Consensus pattern (16 bp):
GCAACGAGCTTACCGA
Found at i:9853775 original size:24 final size:25
Alignment explanation
Indices: 9853741--9853813 Score: 98
Period size: 24 Copynumber: 3.0 Consensus size: 25
9853731 TCACCACAAC
* *
9853741 TCGTATAAATTTCACCGAAGTGCCA
1 TCGTAGAAATTGCACCGAAGTGCCA
9853766 T-GTAGAAATTGCACCGAAGTG-CA
1 TCGTAGAAATTGCACCGAAGTGCCA
*
9853789 TCGTAGAAA-TGCACCGTAGTGCCA
1 TCGTAGAAATTGCACCGAAGTGCCA
9853813 T
1 T
9853814 ATAAGATTGT
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
23 14 0.33
24 28 0.65
25 1 0.02
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.25
Consensus pattern (25 bp):
TCGTAGAAATTGCACCGAAGTGCCA
Found at i:9854750 original size:21 final size:21
Alignment explanation
Indices: 9854725--9854768 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
9854715 AATATAAAGT
*
9854725 GTGTATCGATGCACTACTACA
1 GTGTACCGATGCACTACTACA
* *
9854746 GTGTACCGATGCATTGCTACA
1 GTGTACCGATGCACTACTACA
9854767 GT
1 GT
9854769 AACTTCAACT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.30
Consensus pattern (21 bp):
GTGTACCGATGCACTACTACA
Found at i:9859659 original size:371 final size:371
Alignment explanation
Indices: 9858929--9859669 Score: 1343
Period size: 371 Copynumber: 2.0 Consensus size: 371
9858919 CTCTCTTCTT
9858929 TTTTCTGTACTACCGGTATACCCCACTAACTGGCGGAATATCAACTGCCGATAAACCGCCGGCAA
1 TTTTCTGTACTACCGGTATACCCCACTAACTGGCGGAATATCAACTGCCGATAAACCGCCGGCAA
9858994 TCCGTTCGGCATTTCAGTCCTTGGCGCCATATGATAAGCTGAAGGAGCTTCTGCTCCTATCACTG
66 TCCGTTCGGCATTTCAGTCCTTGGCGCCA-ATGATAAGCTGAAGGAGCTTCTGCTCCTATCACTG
9859059 TAACACCTGGAATTTGTTTCCATGCATATATTTGCCCTACAAATGTATCAAAACTTGCAGTTCAA
130 TAACACCTGGAATTTGTTTCCATGCA-ATATTTGCCCTACAAATGTATCAAAACTTGCAGTTCAA
9859124 GGCCAAATCACCTGCAAAACATAAATTTATCACCATAAATAAAATACCCCAAAGATTTCTGCAAA
194 GGCCAAATCACCTGCAAAACATAAATTTATCACCATAAATAAAATACCCCAAAGATTTCTGCAAA
9859189 ATTCTAAAAATATGAAGAAGAGAAATAATCCAAGGCTTTTCAAGGCCACTTTCTGTTTTAAAAAA
259 ATTCTAAAAATATGAAGAAGAGAAATAATCCAAGGCTTTTCAAGGCCACTTTCTGTTTTAAAAAA
9859254 CAGTCCCTTAACACATTTTAAAAGAAATCGTATGAAAATTTACACTTC
324 CAGTCCCTTAACACATTTTAAAAGAAATCGTATGAAAATTTACACTTC
9859302 TTTTCTGTACTACCGGTATACCCCACACTAACTGGCGGAATATCAACTGCCGATAAACCGCCGGC
1 TTTTCTGTACTACCGGTATA-CCC-CACTAACTGGCGGAATATCAACTGCCGATAAACCGCCGGC
9859367 AATCCGTTCGGCATTTTCAGTCCTTGGCGCC-ATGATAAGCTGAAGGAGCTTCTGCTCCTATCAC
64 AATCCGTTCGGCA-TTTCAGTCCTTGGCGCCAATGATAAGCTGAAGGAGCTTCTGCTCCTATCAC
9859431 TGTAACACCT-GAATTTGTTTCCATGC-ATATTTGCCCTACAAATGTATC-AAACTTGCAGATTC
128 TGTAACACCTGGAATTTGTTTCCATGCAATATTTGCCCTACAAATGTATCAAAACTTGCAG-TTC
9859493 AAGGCCAAATCACCTGCAAAACAT-AATTTATCAACCATAAATAATAATACCCCAAAGATTTTCT
192 AAGGCCAAATCACCTGCAAAACATAAATTTATC-ACCATAAATAA-AATACCCCAAAGA-TTTCT
9859557 GC-AAATTCTAAAAATATGAAGAAGAGAAATAATCCAAGGCTTTTCAAGGCCACTTTCTGTTTTA
254 GCAAAATTCTAAAAATATGAAGAAGAGAAATAATCCAAGGCTTTTCAAGGCCACTTTCTGTTTTA
*
9859621 AAAAACAGTCCC-TAACACATTTTAAAAGAACTCGTATGAAAATTTACAC
319 AAAAACAGTCCCTTAACACATTTTAAAAGAAATCGTATGAAAATTTACAC
9859670 ACTGAAATAA
Statistics
Matches: 360, Mismatches: 1, Indels: 16
0.95 0.00 0.04
Matches are distributed among these distances:
370 18 0.05
371 96 0.27
372 87 0.24
373 43 0.12
374 46 0.13
375 53 0.15
376 17 0.05
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (371 bp):
TTTTCTGTACTACCGGTATACCCCACTAACTGGCGGAATATCAACTGCCGATAAACCGCCGGCAA
TCCGTTCGGCATTTCAGTCCTTGGCGCCAATGATAAGCTGAAGGAGCTTCTGCTCCTATCACTGT
AACACCTGGAATTTGTTTCCATGCAATATTTGCCCTACAAATGTATCAAAACTTGCAGTTCAAGG
CCAAATCACCTGCAAAACATAAATTTATCACCATAAATAAAATACCCCAAAGATTTCTGCAAAAT
TCTAAAAATATGAAGAAGAGAAATAATCCAAGGCTTTTCAAGGCCACTTTCTGTTTTAAAAAACA
GTCCCTTAACACATTTTAAAAGAAATCGTATGAAAATTTACACTTC
Found at i:9874413 original size:136 final size:135
Alignment explanation
Indices: 9874170--9874435 Score: 523
Period size: 136 Copynumber: 2.0 Consensus size: 135
9874160 TACACAACTT
9874170 AATTATACCACCACTGAAAAATAATGTTTGCTGTGGTATTCACCTTTGATAAGTTTAGGGCATAC
1 AATTATACCACCACTGAAAAATAATGTTTGCTGTGGTATTCACCTTTGATAAGTTTAGGGCATAC
9874235 CTTATAGGAACTAAAGTCATAGTACATACGAACCACTTTGCCATTAAGTACCTATTTAATAAAAA
66 CTTATAGGAACTAAAGTCATAGTACATACGAACCACTTTGCCATTAAGTACCTATTTAATAAAAA
9874300 GGATG
131 GGATG
9874305 AATTATACCACCACTGAAAAATAATTGTTTGCTGTGGTATTCACCTTTGATAAGTTTAGGGCATA
1 AATTATACCACCACTGAAAAATAA-TGTTTGCTGTGGTATTCACCTTTGATAAGTTTAGGGCATA
9874370 CCTTATAGGAACTAAAGTCATAGTACATACGAACCACTTTGCCATTAAGTACCTATTTAATAAAA
65 CCTTATAGGAACTAAAGTCATAGTACATACGAACCACTTTGCCATTAAGTACCTATTTAATAAAA
9874435 A
130 A
9874436 TGACAAGCCT
Statistics
Matches: 130, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
135 24 0.18
136 106 0.82
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (135 bp):
AATTATACCACCACTGAAAAATAATGTTTGCTGTGGTATTCACCTTTGATAAGTTTAGGGCATAC
CTTATAGGAACTAAAGTCATAGTACATACGAACCACTTTGCCATTAAGTACCTATTTAATAAAAA
GGATG
Found at i:9880728 original size:23 final size:23
Alignment explanation
Indices: 9880702--9880746 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
9880692 TTAATATTAT
9880702 TTTAACTAATTTACCTTTAAATG
1 TTTAACTAATTTACCTTTAAATG
*
9880725 TTTAACTAATTTAGCTTTAAAT
1 TTTAACTAATTTACCTTTAAAT
9880747 TTGAGTACTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.36, C:0.11, G:0.04, T:0.49
Consensus pattern (23 bp):
TTTAACTAATTTACCTTTAAATG
Found at i:9883292 original size:3 final size:3
Alignment explanation
Indices: 9883286--9883317 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
9883276 AAAATAATAA
*
9883286 TAT TAT TAT TAT TGT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
9883318 CATTTTTGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:9883968 original size:30 final size:32
Alignment explanation
Indices: 9883898--9883968 Score: 83
Period size: 32 Copynumber: 2.3 Consensus size: 32
9883888 GTGGTTTAGC
* * *
9883898 CCTTTAATTTTCTGTTATTTATTTTATTTAGT
1 CCTTTAATTTTATGTTATTTATTATATTTACT
* *
9883930 CATTTAATTTTATGTT-TTTGTTAT-TTTACT
1 CCTTTAATTTTATGTTATTTATTATATTTACT
9883960 CCTTTAATT
1 CCTTTAATT
9883969 AATTAATTAA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
30 13 0.39
31 6 0.18
32 14 0.42
ACGTcount: A:0.20, C:0.10, G:0.06, T:0.65
Consensus pattern (32 bp):
CCTTTAATTTTATGTTATTTATTATATTTACT
Found at i:9884009 original size:19 final size:19
Alignment explanation
Indices: 9883962--9884020 Score: 59
Period size: 19 Copynumber: 3.2 Consensus size: 19
9883952 ATTTTACTCC
* *
9883962 TTTAATTAATTAATTAAT-
1 TTTAATAAATTAATCAATA
*
9883980 TTGAATCAAATTAATCAATA
1 TTTAAT-AAATTAATCAATA
*
9884000 TTTAATAAATGAATC-ATA
1 TTTAATAAATTAATCAATA
9884018 TTT
1 TTT
9884021 TAACTTGATA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
18 11 0.32
19 18 0.53
20 5 0.15
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (19 bp):
TTTAATAAATTAATCAATA
Found at i:9892798 original size:23 final size:21
Alignment explanation
Indices: 9892737--9892821 Score: 66
Period size: 21 Copynumber: 4.0 Consensus size: 21
9892727 ACGATGCATC
*
9892737 TCTTGAATATGCATCGATACA
1 TCTTGAATGTGCATCGATACA
* * * *
9892758 TCATGAAGGTGTACCGATACA
1 TCTTGAATGTGCATCGATACA
*
9892779 TTCCTTGAATGTGCATCGATGCA
1 -T-CTTGAATGTGCATCGATACA
*
9892802 -CTAT-ACTGTGCATCGATACA
1 TCT-TGAATGTGCATCGATACA
9892822 CCCATAGGGT
Statistics
Matches: 49, Mismatches: 12, Indels: 7
0.72 0.18 0.10
Matches are distributed among these distances:
20 16 0.33
21 17 0.35
22 1 0.02
23 15 0.31
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (21 bp):
TCTTGAATGTGCATCGATACA
Found at i:9900224 original size:124 final size:124
Alignment explanation
Indices: 9900004--9900333 Score: 453
Period size: 124 Copynumber: 2.7 Consensus size: 124
9899994 AAAACAATTC
* * ** *
9900004 TTGGATTTCAACTTCATGACGAAGGATATCCAATTCGAGGCTCAAATTCACAATGAATGGGCCAT
1 TTGGATTTCAACTTCATGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACAAATGGGACAT
* * * * *
9900069 CCACAATTTTAACTTCATAACAAAGGATATCGTGTCTACCAGCAATATTCATATTTAGA
66 CCACGATTTCAACTTCACAACAAAGGATATCGTGTCCACCAGCAACATTCATATTTAGA
* * *
9900128 TTGGATTTTAACTTTATGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACAAATGGGTCAT
1 TTGGATTTCAACTTCATGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACAAATGGGACAT
* * * *
9900193 CCACGATTTCAACTTCACGACGAAGGGTATCGTGTCCACCAGCAACATTCATCTTTAGA
66 CCACGATTTCAACTTCACAACAAAGGATATCGTGTCCACCAGCAACATTCATATTTAGA
* * * * **
9900252 TTGGATTTCAACTTCACGATGAAGGATATCCAACTCAAGGCTCAACTTCACGACAAATTAGACAT
1 TTGGATTTCAACTTCATGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACAAATGGGACAT
9900317 CCACGATTTCAACTTCA
66 CCACGATTTCAACTTCA
9900334 TGATGAAAGA
Statistics
Matches: 181, Mismatches: 25, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
124 181 1.00
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.28
Consensus pattern (124 bp):
TTGGATTTCAACTTCATGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACAAATGGGACAT
CCACGATTTCAACTTCACAACAAAGGATATCGTGTCCACCAGCAACATTCATATTTAGA
Found at i:9900761 original size:3 final size:3
Alignment explanation
Indices: 9900753--9900784 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
9900743 AGCTTAAAAA
*
9900753 TAT TAT TAT TAT TAT TAT TAT TAT TAA TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
9900785 CATTTTTGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:9903210 original size:22 final size:23
Alignment explanation
Indices: 9903124--9903211 Score: 69
Period size: 20 Copynumber: 4.0 Consensus size: 23
9903114 TACAATAAAT
**
9903124 AATATTATTTATTATAAAACTTAA
1 AATATTATTTATTAT-AATTTTAA
* * *
9903148 TATTATTATTT-TTAAAATATTAA
1 -AATATTATTTATTATAATTTTAA
*
9903171 AATA--ATTTATT-TATTTTTAA
1 AATATTATTTATTATAATTTTAA
9903191 AATATTATTT-TTATAATTTTA
1 AATATTATTTATTATAATTTTA
9903212 TTAATAAAAA
Statistics
Matches: 50, Mismatches: 9, Indels: 11
0.71 0.13 0.16
Matches are distributed among these distances:
20 14 0.28
21 4 0.08
22 14 0.28
23 6 0.12
24 3 0.06
25 9 0.18
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (23 bp):
AATATTATTTATTATAATTTTAA
Found at i:9903419 original size:27 final size:27
Alignment explanation
Indices: 9903375--9903468 Score: 84
Period size: 27 Copynumber: 3.4 Consensus size: 27
9903365 TAAATATATA
**
9903375 AATAATATTATTCATTATTAATAATTT
1 AATAATATTATTTTTTATTAATAATTT
* *
9903402 AATAATATTATTTTTTATGAAATTAA-TA
1 AATAATATTATTTTTTAT-TAA-TAATTT
**
9903430 AATAATA-TAAATTTTATTAATAATTT
1 AATAATATTATTTTTTATTAATAATTT
*
9903456 ATTATATATTATT
1 AATA-ATATTATT
9903469 AAGATAAAAA
Statistics
Matches: 51, Mismatches: 11, Indels: 9
0.72 0.15 0.13
Matches are distributed among these distances:
25 3 0.06
26 6 0.12
27 27 0.53
28 12 0.24
29 3 0.06
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (27 bp):
AATAATATTATTTTTTATTAATAATTT
Found at i:9903545 original size:22 final size:23
Alignment explanation
Indices: 9903517--9903563 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
9903507 TTGATTATTT
*
9903517 TATTATAATGTTAAAAATA-TAA
1 TATTATAATATTAAAAATATTAA
* *
9903539 TATTATATTATTATAAATATTAA
1 TATTATAATATTAAAAATATTAA
9903562 TA
1 TA
9903564 AATATATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (23 bp):
TATTATAATATTAAAAATATTAA
Found at i:9903550 original size:30 final size:34
Alignment explanation
Indices: 9903490--9903569 Score: 96
Period size: 32 Copynumber: 2.4 Consensus size: 34
9903480 ATAATATCTT
* *
9903490 ATATTATTATAATATAATTGATTATTTTATTAT-A
1 ATATTAATA-AATATAATTGATTATATTATTATAA
*
9903524 ATGTTAA-AAATATAA-T-ATTATATTATTATAA
1 ATATTAATAAATATAATTGATTATATTATTATAA
9903555 ATATTAATAAATATA
1 ATATTAATAAATATA
9903570 TTTTAAATAT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
30 12 0.30
31 8 0.20
32 14 0.35
33 1 0.03
34 5 0.12
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (34 bp):
ATATTAATAAATATAATTGATTATATTATTATAA
Found at i:9906468 original size:15 final size:16
Alignment explanation
Indices: 9906448--9906477 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9906438 TTTTCTCTGG
9906448 AGAGAA-GGAAAGAAT
1 AGAGAAGGGAAAGAAT
9906463 AGAGAAGGGAAAGAA
1 AGAGAAGGGAAAGAA
9906478 ATGGGGGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.60, C:0.00, G:0.37, T:0.03
Consensus pattern (16 bp):
AGAGAAGGGAAAGAAT
Found at i:9907482 original size:5 final size:5
Alignment explanation
Indices: 9907472--9907496 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
9907462 TAAATTATAC
9907472 TTTAT TTTAT TTTAT TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT
9907497 CTTTGCGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTAT
Found at i:9908887 original size:31 final size:30
Alignment explanation
Indices: 9908835--9908896 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 30
9908825 AACTTGATGC
*
9908835 TACTAATTCATTTTTCTCTTTTGTTTGTGT
1 TACTAATTCATTTTTCTCTTTTGTGTGTGT
*
9908865 TACTAACTT-ATTTCTTTTCTTTTGTGTGTGT
1 TACTAA-TTCATTT-TTCTCTTTTGTGTGTGT
9908896 T
1 T
9908897 TCATTTTTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 10 0.36
31 18 0.64
ACGTcount: A:0.13, C:0.13, G:0.11, T:0.63
Consensus pattern (30 bp):
TACTAATTCATTTTTCTCTTTTGTGTGTGT
Found at i:9910960 original size:17 final size:17
Alignment explanation
Indices: 9910938--9910988 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
9910928 ATCAAAACAA
9910938 AGAGAAAAAGAGCAAAG
1 AGAGAAAAAGAGCAAAG
*
9910955 AGAGAAAAA-AACAAAG
1 AGAGAAAAAGAGCAAAG
9910971 A-A-AAATATAGAGCAAAG
1 AGAGAAA-A-AGAGCAAAG
9910988 A
1 A
9910989 AAAAAAATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
14 3 0.10
15 2 0.07
16 8 0.28
17 16 0.55
ACGTcount: A:0.69, C:0.06, G:0.22, T:0.04
Consensus pattern (17 bp):
AGAGAAAAAGAGCAAAG
Found at i:9910966 original size:31 final size:31
Alignment explanation
Indices: 9910931--9910995 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 31
9910921 ATATCTAATC
*
9910931 AAAACAAAGAGAAA-A-AGAGCAAAGAGAGAAA
1 AAAACAAAGAAAAATATAGAGCAAAGA-A-AAA
9910962 AAAACAAAGAAAAATATAGAGCAAAGAAAAA
1 AAAACAAAGAAAAATATAGAGCAAAGAAAAA
9910993 AAA
1 AAA
9910996 TAAGAAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
31 19 0.61
32 2 0.06
33 10 0.32
ACGTcount: A:0.74, C:0.06, G:0.17, T:0.03
Consensus pattern (31 bp):
AAAACAAAGAAAAATATAGAGCAAAGAAAAA
Found at i:9911030 original size:14 final size:14
Alignment explanation
Indices: 9911013--9911039 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9911003 AAAATAAAAG
9911013 AAAAAGAAAACAAC
1 AAAAAGAAAACAAC
9911027 AAAAAGAAAACAA
1 AAAAAGAAAACAA
9911040 GAAGTACATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.81, C:0.11, G:0.07, T:0.00
Consensus pattern (14 bp):
AAAAAGAAAACAAC
Found at i:9911030 original size:19 final size:20
Alignment explanation
Indices: 9910988--9911036 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
9910978 TAGAGCAAAG
9910988 AAAAA-AAATAAGAAAAAAA-
1 AAAAAGAAA-AAGAAAAAAAC
* *
9911007 TAAAAGAAAAAGAAAACAAC
1 AAAAAGAAAAAGAAAAAAAC
9911027 AAAAAGAAAA
1 AAAAAGAAAA
9911037 CAAGAAGTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 13 0.52
20 12 0.48
ACGTcount: A:0.84, C:0.04, G:0.08, T:0.04
Consensus pattern (20 bp):
AAAAAGAAAAAGAAAAAAAC
Found at i:9911030 original size:25 final size:25
Alignment explanation
Indices: 9910984--9911036 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
9910974 AATATAGAGC
* *
9910984 AAAGAAAAAAAATAAGAAAAAAATA
1 AAAGAAAAAAAATAACAAAAAAAGA
*
9911009 AAAGAAAAAGAA-AACAACAAAAAGA
1 AAAGAAAAAAAATAACAA-AAAAAGA
9911034 AAA
1 AAA
9911037 CAAGAAGTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 4 0.17
25 20 0.83
ACGTcount: A:0.83, C:0.04, G:0.09, T:0.04
Consensus pattern (25 bp):
AAAGAAAAAAAATAACAAAAAAAGA
Found at i:9912487 original size:18 final size:18
Alignment explanation
Indices: 9912438--9912487 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
9912428 AATGATTACA
9912438 TTTTTATTATTTATCATTT
1 TTTTTATTATTT-TCATTT
* *
9912457 TTTTTCTTTTTTTC-TTT
1 TTTTTATTATTTTCATTT
9912474 TTTTTAATTATTTT
1 TTTTT-ATTATTTT
9912488 TGACAATAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 8 0.31
18 8 0.31
19 10 0.38
ACGTcount: A:0.14, C:0.06, G:0.00, T:0.80
Consensus pattern (18 bp):
TTTTTATTATTTTCATTT
Found at i:9914600 original size:29 final size:28
Alignment explanation
Indices: 9914539--9914663 Score: 108
Period size: 29 Copynumber: 4.3 Consensus size: 28
9914529 TTTGACGTTC
* *
9914539 ATTGTAATTTATAAAAAAAGTTTGTCGTAT
1 ATTGTAATTTAT--AAAAAGTTTGTCCTTT
*
9914569 ATTGTAATTTATAAAAGGTTCTGTCCTTT
1 ATTGTAATTTATAAAAAGTT-TGTCCTTT
* * *
9914598 ATTATAATTTATAAAAAGTTTTATCCATT
1 ATTGTAATTTATAAAAAG-TTTGTCCTTT
* * *
9914627 AATGCAATTTAT-AAAAGATTTATTCCTTT
1 ATTGTAATTTATAAAAAG-TTT-GTCCTTT
9914656 ATTGTAAT
1 ATTGTAAT
9914664 ACAATTTTGA
Statistics
Matches: 77, Mismatches: 15, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
28 15 0.19
29 48 0.62
30 14 0.18
ACGTcount: A:0.37, C:0.07, G:0.10, T:0.46
Consensus pattern (28 bp):
ATTGTAATTTATAAAAAGTTTGTCCTTT
Found at i:9915495 original size:64 final size:62
Alignment explanation
Indices: 9915409--9915578 Score: 216
Period size: 63 Copynumber: 2.7 Consensus size: 62
9915399 CTTGAAATTT
* * *
9915409 TTTTGTCTCTCGAGACAGTTTCTTTTGAAAAAAATCTTTGAGTTTG-TTACTTTGGAAACAAA
1 TTTTGTCTCTTGAGACAGTTTCTTTTGAAAAAAATCTTTGAGTTCGTTTACATT-GAAACAAA
* * * *
9915471 GTTTTGTCTCCTTGAGACAATTTCTTTTGAGAAAAAACCTTTGAGATCGTTTCCATTGAAACAAA
1 -TTTTGTCT-CTTGAGACAGTTTCTTTTGA-AAAAAATCTTTGAGTTCGTTTACATTGAAACAAA
* *
9915536 TTTTGTCTCTTGAGACAGTTTCTTTTGAGAAAAATCCTTGAGT
1 TTTTGTCTCTTGAGACAGTTTCTTTTGAAAAAAATCTTTGAGT
9915579 ATGTGTTGAG
Statistics
Matches: 92, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
62 11 0.12
63 27 0.29
64 26 0.28
65 23 0.25
66 5 0.05
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.41
Consensus pattern (62 bp):
TTTTGTCTCTTGAGACAGTTTCTTTTGAAAAAAATCTTTGAGTTCGTTTACATTGAAACAAA
Found at i:9925671 original size:21 final size:21
Alignment explanation
Indices: 9925647--9925686 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
9925637 AAAATATCTA
9925647 AAACAAACAAATATTCAAAAC
1 AAACAAACAAATATTCAAAAC
**
9925668 AAACATCCAAATATTCAAA
1 AAACAAACAAATATTCAAA
9925687 TACATAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.62, C:0.20, G:0.00, T:0.17
Consensus pattern (21 bp):
AAACAAACAAATATTCAAAAC
Found at i:9927147 original size:21 final size:21
Alignment explanation
Indices: 9927123--9927162 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
9927113 AAAATATCTA
9927123 AAACAAACAAATATTCAAAAC
1 AAACAAACAAATATTCAAAAC
**
9927144 AAACATCCAAATATTCAAA
1 AAACAAACAAATATTCAAA
9927163 TACATAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.62, C:0.20, G:0.00, T:0.17
Consensus pattern (21 bp):
AAACAAACAAATATTCAAAAC
Found at i:9927579 original size:12 final size:12
Alignment explanation
Indices: 9927564--9927603 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
9927554 TCTTGAGCCA
*
9927564 GAGCCAGAGCTG
1 GAGCCGGAGCTG
*
9927576 GAGCCGGAGCTA
1 GAGCCGGAGCTG
9927588 GAGCCGGAGCTG
1 GAGCCGGAGCTG
9927600 GAGC
1 GAGC
9927604 AGCTTGTGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.23, C:0.25, G:0.45, T:0.07
Consensus pattern (12 bp):
GAGCCGGAGCTG
Found at i:9927585 original size:18 final size:18
Alignment explanation
Indices: 9927558--9927603 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
9927548 TCAAGCTCTT
* *
9927558 GAGCCAGAGCCAGAGCTG
1 GAGCCGGAGCCAGAGCCG
*
9927576 GAGCCGGAGCTAGAGCCG
1 GAGCCGGAGCCAGAGCCG
*
9927594 GAGCTGGAGC
1 GAGCCGGAGC
9927604 AGCTTGTGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.24, C:0.26, G:0.43, T:0.07
Consensus pattern (18 bp):
GAGCCGGAGCCAGAGCCG
Found at i:9935538 original size:23 final size:23
Alignment explanation
Indices: 9935512--9935570 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 23
9935502 TATATGTCCT
9935512 GAAGGACCGCGTAGAAATGTCTC
1 GAAGGACCGCGTAGAAATGTCTC
* *** * *
9935535 GAAGGGCCATATGGAATTGTCTC
1 GAAGGACCGCGTAGAAATGTCTC
9935558 GAAGGACCGCGTA
1 GAAGGACCGCGTA
9935571 TAACCCTCGA
Statistics
Matches: 25, Mismatches: 11, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.29, C:0.20, G:0.32, T:0.19
Consensus pattern (23 bp):
GAAGGACCGCGTAGAAATGTCTC
Found at i:9938627 original size:4 final size:4
Alignment explanation
Indices: 9938618--9938643 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
9938608 CTCCTCTACA
9938618 TTTC TTTC TTTC TTTC TTTC TTTC TT
1 TTTC TTTC TTTC TTTC TTTC TTTC TT
9938644 ATCCTATCAA
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:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTC
Found at i:9940108 original size:20 final size:21
Alignment explanation
Indices: 9940064--9940109 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
9940054 TTTGGCTAGT
*
9940064 GGTATCAATACTTGTTCTTTA
1 GGTATCAATACTTGTTCTATA
*
9940085 GGTATCAATA-TTGTTCTATC
1 GGTATCAATACTTGTTCTATA
9940105 GGTAT
1 GGTAT
9940110 TGATACTCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.24, C:0.13, G:0.17, T:0.46
Consensus pattern (21 bp):
GGTATCAATACTTGTTCTATA
Found at i:9943816 original size:30 final size:28
Alignment explanation
Indices: 9943782--9943853 Score: 67
Period size: 30 Copynumber: 2.5 Consensus size: 28
9943772 TAGTTTTATA
* *
9943782 AAGTTCTCTATTTTCTTTTCTTTTCTTTT
1 AAGTT-TCTATTTTCTTTTATTTTATTTT
*
9943811 CAAGTTT-TCATTTTTATTTTATTTTATTTT
1 -AAGTTTCT-A-TTTTCTTTTATTTTATTTT
9943841 AAGTTT-TATTTTC
1 AAGTTTCTATTTTC
9943854 AAACATGCTA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
27 4 0.11
28 2 0.06
29 9 0.25
30 21 0.58
ACGTcount: A:0.17, C:0.11, G:0.04, T:0.68
Consensus pattern (28 bp):
AAGTTTCTATTTTCTTTTATTTTATTTT
Found at i:9945780 original size:16 final size:16
Alignment explanation
Indices: 9945759--9945797 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
9945749 TATTTTAAAA
*
9945759 TTAAATTTT-TTTAGT
1 TTAAATTTTATTTAAT
9945774 TTCAAATTTTATTTAAT
1 TT-AAATTTTATTTAAT
9945791 TTAAATT
1 TTAAATT
9945798 CCACTATGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 2 0.10
16 12 0.57
17 7 0.33
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (16 bp):
TTAAATTTTATTTAAT
Found at i:9952174 original size:29 final size:29
Alignment explanation
Indices: 9952142--9952231 Score: 85
Period size: 29 Copynumber: 3.0 Consensus size: 29
9952132 AAAATTTTGG
*
9952142 TTAGTGACCAAAATATAATTTTTGAAAGT
1 TTAGTGACCAAAGTATAATTTTTGAAAGT
**
9952171 TTAGT-AGCCAAAGTATAAATTTAGGAAAAGT
1 TTAGTGA-CCAAAGTAT-AATTTTTG-AAAGT
* *
9952202 TTAAG-GACCAAAGTGTAATTTTTAAAAGT
1 TT-AGTGACCAAAGTATAATTTTTGAAAGT
9952231 T
1 T
9952232 ATATGTTTTG
Statistics
Matches: 49, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
28 1 0.02
29 19 0.39
30 11 0.22
31 15 0.31
32 3 0.06
ACGTcount: A:0.42, C:0.07, G:0.17, T:0.34
Consensus pattern (29 bp):
TTAGTGACCAAAGTATAATTTTTGAAAGT
Found at i:9954746 original size:31 final size:31
Alignment explanation
Indices: 9954708--9954814 Score: 85
Period size: 31 Copynumber: 3.3 Consensus size: 31
9954698 TTAGGTCCAT
9954708 AAGGAATTACCAGTCGATGCTGAACCTATAC
1 AAGGAATTACCAGTCGATGCTGAACCTATAC
* * *
9954739 AAGGAATTTCTAGCAG-CGA--CTGAACCTGCCAGAG
1 AAGGAA--T-TACCAGTCGATGCTGAACCT---ATAC
* *
9954773 ATAGGAATTACCAGTCGATGTTGAACCTATAT
1 A-AGGAATTACCAGTCGATGCTGAACCTATAC
9954805 AAGGAATTAC
1 AAGGAATTAC
9954815 TAGCAACGAC
Statistics
Matches: 59, Mismatches: 7, Indels: 20
0.69 0.08 0.23
Matches are distributed among these distances:
31 23 0.39
32 8 0.14
33 8 0.14
34 8 0.14
35 12 0.20
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (31 bp):
AAGGAATTACCAGTCGATGCTGAACCTATAC
Found at i:9954818 original size:66 final size:66
Alignment explanation
Indices: 9954709--9954838 Score: 206
Period size: 66 Copynumber: 2.0 Consensus size: 66
9954699 TAGGTCCATA
* *
9954709 AGGAATTACCAGTCGATGCTGAACCTATACAAGGAATTTCTAGCAGCGACTGAACCTGCCAGAGA
1 AGGAATTACCAGTCGATGCTGAACCTATACAAGGAATTACTAGCAACGACTGAACCTGCCAGAGA
9954774 T
66 T
* * * *
9954775 AGGAATTACCAGTCGATGTTGAACCTATATAAGGAATTACTAGCAACGACTGGACCTGTCAGAG
1 AGGAATTACCAGTCGATGCTGAACCTATACAAGGAATTACTAGCAACGACTGAACCTGCCAGAG
9954839 TCTTTATACC
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
66 58 1.00
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.22
Consensus pattern (66 bp):
AGGAATTACCAGTCGATGCTGAACCTATACAAGGAATTACTAGCAACGACTGAACCTGCCAGAGA
T
Found at i:9958630 original size:66 final size:66
Alignment explanation
Indices: 9958524--9958650 Score: 191
Period size: 66 Copynumber: 1.9 Consensus size: 66
9958514 GTCTATAAGA
* * * * **
9958524 AATTATCAGTCGGTGTTGAACCTATACAAGGAATTACCAGCAGTTACTGAACCTGCCAGAGATAG
1 AATTACCAGTCGATGTTGAACCTAAACAAGGAAATACCAGCAGCGACTGAACCTGCCAGAGATAG
9958589 G
66 G
*
9958590 AATTACCAGTCGATGTTGAACCTAAACAAGGAAATACCAGCAGCGACTGAACCTGTCAGAG
1 AATTACCAGTCGATGTTGAACCTAAACAAGGAAATACCAGCAGCGACTGAACCTGCCAGAG
9958651 TCTTCATACC
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
66 54 1.00
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.21
Consensus pattern (66 bp):
AATTACCAGTCGATGTTGAACCTAAACAAGGAAATACCAGCAGCGACTGAACCTGCCAGAGATAG
G
Found at i:9966265 original size:24 final size:24
Alignment explanation
Indices: 9966211--9966265 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
9966201 TGGTTGTGAA
9966211 AAATT-AAATCTAGAAAAATAAAT
1 AAATTAAAATCTAGAAAAATAAAT
* *
9966234 AAAGTAAAATTTAGAAAAGA-AAAT
1 AAATTAAAATCTAGAAAA-ATAAAT
*
9966258 CAATTAAA
1 AAATTAAA
9966266 TGAAATAACC
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 4 0.15
24 21 0.81
25 1 0.04
ACGTcount: A:0.65, C:0.04, G:0.07, T:0.24
Consensus pattern (24 bp):
AAATTAAAATCTAGAAAAATAAAT
Found at i:9966752 original size:19 final size:21
Alignment explanation
Indices: 9966728--9966770 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
9966718 ATCGACTAAT
9966728 TGAAAA-AAT-TAGCTAAGCA
1 TGAAAATAATATAGCTAAGCA
9966747 TGAAAATAATCATAGCTAAGCA
1 TGAAAATAAT-ATAGCTAAGCA
9966769 TG
1 TG
9966771 TTTTTATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 6 0.29
20 3 0.14
22 12 0.57
ACGTcount: A:0.49, C:0.12, G:0.16, T:0.23
Consensus pattern (21 bp):
TGAAAATAATATAGCTAAGCA
Found at i:9968246 original size:95 final size:95
Alignment explanation
Indices: 9968037--9968251 Score: 261
Period size: 95 Copynumber: 2.3 Consensus size: 95
9968027 TGTGGGTATC
* * * *
9968037 GATACCAAGAGAAAGGTATCGATACCAGGGATTCCAGAATGTCGAAATGGTATCGATATTGAAAG
1 GATACCAAGAGAAAGGTATCGATACCAGGAATTACAGAATGTAGAAATGGTATCGATACTGAAAG
*
9968102 GGAGTATCGGTACCATAATATAGAAGCATT
66 GGAGTAACGGTACCATAATATAGAAGCATT
* * ** *
9968132 GATACTAAGAGAAACGTATCGATACCATTAATTACAGAATGTATAAATGGTATCGATACTGAAAG
1 GATACCAAGAGAAAGGTATCGATACCAGGAATTACAGAATGTAGAAATGGTATCGATACTGAAAG
* * *
9968197 GGCA-TAACGGTACCATAGTATATAAGTATT
66 GG-AGTAACGGTACCATAATATAGAAGCATT
* * **
9968227 GATACCATGATAGGGGTATCGATAC
1 GATACCAAGAGAAAGGTATCGATAC
9968252 TATTGAGCCT
Statistics
Matches: 100, Mismatches: 19, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
95 99 0.99
96 1 0.01
ACGTcount: A:0.39, C:0.13, G:0.23, T:0.25
Consensus pattern (95 bp):
GATACCAAGAGAAAGGTATCGATACCAGGAATTACAGAATGTAGAAATGGTATCGATACTGAAAG
GGAGTAACGGTACCATAATATAGAAGCATT
Found at i:9968707 original size:45 final size:45
Alignment explanation
Indices: 9968656--9969072 Score: 602
Period size: 45 Copynumber: 9.2 Consensus size: 45
9968646 AAAATGAATA
*
9968656 CATAAATGAAATGCATAACGATGCATTATCGGCATGAAAGGATGC
1 CATAAATGAAATGCATAACGGTGCATTATCGGCATGAAAGGATGC
* * *
9968701 CATAAATGAAATACATAACGGTGCATTATCGGTAAGAAAGGATGC
1 CATAAATGAAATGCATAACGGTGCATTATCGGCATGAAAGGATGC
* **
9968746 CATAAATGAAATTCATAACAATGCATTATCGGCATGAAAGGATGC
1 CATAAATGAAATGCATAACGGTGCATTATCGGCATGAAAGGATGC
* *
9968791 CATAAATGAAATTCATAAAAGGTGCATTATCGGCATGAAAGGATGC
1 CATAAATGAAATGCAT-AACGGTGCATTATCGGCATGAAAGGATGC
* * *
9968837 TATAAATGAAATGCATAACGGTGCATTATCGGCATGAAAAGATTC
1 CATAAATGAAATGCATAACGGTGCATTATCGGCATGAAAGGATGC
* *
9968882 CATAAATGAAATGCATAACGGTGCATTATCGGCATGAAATGATGT
1 CATAAATGAAATGCATAACGGTGCATTATCGGCATGAAAGGATGC
* *
9968927 CATAAATGAAATGCATAACGGTGTATTATCGACATGAAAGGATGC
1 CATAAATGAAATGCATAACGGTGCATTATCGGCATGAAAGGATGC
* * *
9968972 CATAAATGAAATGCACAACGGTGCATTATCGACATGAAAGGATGT
1 CATAAATGAAATGCATAACGGTGCATTATCGGCATGAAAGGATGC
* * **
9969017 CATAAATAAAATGCATAACGGTTCATTATAAGCAT-AAACGGATGC
1 CATAAATGAAATGCATAACGGTGCATTATCGGCATGAAA-GGATGC
9969062 CATAAATGAAA
1 CATAAATGAAA
9969073 ATAAAGAATA
Statistics
Matches: 334, Mismatches: 36, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
44 3 0.01
45 291 0.87
46 40 0.12
ACGTcount: A:0.41, C:0.14, G:0.20, T:0.24
Consensus pattern (45 bp):
CATAAATGAAATGCATAACGGTGCATTATCGGCATGAAAGGATGC
Found at i:9973646 original size:94 final size:94
Alignment explanation
Indices: 9973523--9973741 Score: 246
Period size: 94 Copynumber: 2.3 Consensus size: 94
9973513 ACTGTTGTGG
* * * * * *
9973523 GTATCGATACCAAGAGAAAGGTATCGATACCAGGGATT-CTAGACTGTCGAAATGGTATCGATAC
1 GTATCGATACCAAGAGAAAGGTATCGATACCAGGAATTAC-AAAATATAGAAATGATATCGATAC
*
9973587 TAAAA-GGAGTATCGGTAACATAGTATAGAA
65 TAAAAGGGA-TATCGGTAACATAGTATAAAA
* * * *
9973617 GTATCGATACTAAGAGAAAGGTATTGATACCATGAATTACAAAATATAGAAATTATATCGATACT
1 GTATCGATACCAAGAGAAAGGTATCGATACCAGGAATTACAAAATATAGAAATGATATCGATACT
* *
9973682 GAAAGGGCATATCGGTACCATAGTATAAAA
66 AAAAGGG-ATATCGGTAACATAGTATAAAA
* *
9973712 GTATCGATACCATG-GTAAGGGTATCGATAC
1 GTATCGATACCAAGAG-AAAGGTATCGATAC
9973742 TATTGAGCCT
Statistics
Matches: 104, Mismatches: 17, Indels: 7
0.81 0.13 0.05
Matches are distributed among these distances:
94 57 0.55
95 46 0.44
96 1 0.01
ACGTcount: A:0.40, C:0.13, G:0.22, T:0.25
Consensus pattern (94 bp):
GTATCGATACCAAGAGAAAGGTATCGATACCAGGAATTACAAAATATAGAAATGATATCGATACT
AAAAGGGATATCGGTAACATAGTATAAAA
Found at i:9974196 original size:45 final size:45
Alignment explanation
Indices: 9974145--9974442 Score: 395
Period size: 45 Copynumber: 6.8 Consensus size: 45
9974135 AAGATTAATA
* *
9974145 CATAAATGAAATGTATAACGGTGCATTATCGGCATGAAATGATGT
1 CATAAATGAAATGCATAACGGTGCATTATCGGCATGAAAGGATGT
* *
9974190 CATAAATAAAATGCATAACAGTGCATTATCGGCATGAAAGGATGT
1 CATAAATGAAATGCATAACGGTGCATTATCGGCATGAAAGGATGT
*
9974235 C----AT-AAATG-A-AA---TGCATTACCGGCATGAAAGGATGT
1 CATAAATGAAATGCATAACGGTGCATTATCGGCATGAAAGGATGT
*
9974270 CATAAATGAAATGCATAACGGTGCATTATCGGCATGAAAGAAT-T
1 CATAAATGAAATGCATAACGGTGCATTATCGGCATGAAAGGATGT
*
9974314 CCATAAATGAAATGCATAACGGTGCATTATCGGCATGGAAGGATGT
1 -CATAAATGAAATGCATAACGGTGCATTATCGGCATGAAAGGATGT
*
9974360 CATAAATGAAATGCATAACGGTGCATTATCGGCATGAAATGATGAT
1 CATAAATGAAATGCATAACGGTGCATTATCGGCATGAAAGGATG-T
* **
9974406 -ATAAATAAAATGCATAACGGTGCATTATAAGCATGAA
1 CATAAATGAAATGCATAACGGTGCATTATCGGCATGAA
9974443 CGGGTGCCAT
Statistics
Matches: 226, Mismatches: 14, Indels: 26
0.85 0.05 0.10
Matches are distributed among these distances:
35 24 0.11
38 2 0.01
39 3 0.01
40 10 0.04
41 3 0.01
42 2 0.01
44 1 0.00
45 179 0.79
46 2 0.01
ACGTcount: A:0.40, C:0.13, G:0.21, T:0.25
Consensus pattern (45 bp):
CATAAATGAAATGCATAACGGTGCATTATCGGCATGAAAGGATGT
Found at i:9974250 original size:35 final size:35
Alignment explanation
Indices: 9974211--9974285 Score: 141
Period size: 35 Copynumber: 2.1 Consensus size: 35
9974201 TGCATAACAG
*
9974211 TGCATTATCGGCATGAAAGGATGTCATAAATGAAA
1 TGCATTACCGGCATGAAAGGATGTCATAAATGAAA
9974246 TGCATTACCGGCATGAAAGGATGTCATAAATGAAA
1 TGCATTACCGGCATGAAAGGATGTCATAAATGAAA
9974281 TGCAT
1 TGCAT
9974286 AACGGTGCAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.39, C:0.13, G:0.23, T:0.25
Consensus pattern (35 bp):
TGCATTACCGGCATGAAAGGATGTCATAAATGAAA
Found at i:9974299 original size:80 final size:80
Alignment explanation
Indices: 9974166--9974420 Score: 316
Period size: 80 Copynumber: 3.1 Consensus size: 80
9974156 TGTATAACGG
* * *
9974166 TGCATTATCGGCATGAAATGATGTCATAAATAAAATGCATAACAGTGCATTATCGGCATGAAAGG
1 TGCATTATCGGCATGAAAGGATGTCATAAATGAAATGCATAACGGTGCATTATCGGCATGAAAGG
9974231 ATGTCATAAATGAAA
66 ATGTCATAAATGAAA
* *
9974246 TGCATTACCGGCATGAAAGGATGTCATAAATGAAATGCATAACGGTGCATTATCGGCATGAAAGA
1 TGCATTATCGGCATGAAAGGATGTCATAAATGAAATGCATAACGGTGCATTATCGGCATGAAAGG
9974311 AT-TCCATAAATGAAATGCATAA
66 ATGT-C----AT-AAATG-A-AA
*
9974333 CGGTGCATTATCGGCATGGAAGGATGTCATAAATGAAATGCATAACGGTGCATTATCGGCATGAA
1 ---TGCATTATCGGCATGAAAGGATGTCATAAATGAAATGCATAACGGTGCATTATCGGCATGAA
* *
9974398 ATGATGAT-ATAAATAAAA
63 AGGATG-TCATAAATGAAA
9974416 TGCAT
1 TGCAT
9974421 AACGGTGCAT
Statistics
Matches: 152, Mismatches: 10, Indels: 26
0.81 0.05 0.14
Matches are distributed among these distances:
79 1 0.01
80 68 0.45
83 2 0.01
84 3 0.02
85 9 0.06
86 3 0.02
87 2 0.01
90 63 0.41
92 1 0.01
ACGTcount: A:0.40, C:0.13, G:0.22, T:0.25
Consensus pattern (80 bp):
TGCATTATCGGCATGAAAGGATGTCATAAATGAAATGCATAACGGTGCATTATCGGCATGAAAGG
ATGTCATAAATGAAA
Found at i:9974367 original size:125 final size:125
Alignment explanation
Indices: 9974145--9974375 Score: 394
Period size: 125 Copynumber: 1.8 Consensus size: 125
9974135 AAGATTAATA
*
9974145 CATAAATGAAATGTATAACGGTGCATTATCGGCATGAAATGATGTCATAAATAAAATGCATAACA
1 CATAAATGAAATGCATAACGGTGCATTATCGGCATGAAATGATGTCATAAATAAAATGCATAACA
9974210 GTGCATTATCGGCATGAAAGGATGTCATAAATGAAATGCATTACCGGCATGAAAGGATGT
66 GTGCATTATCGGCATGAAAGGATGTCATAAATGAAATGCATTACCGGCATGAAAGGATGT
*
9974270 CATAAATGAAATGCATAACGGTGCATTATCGGCATGAAA-GAAT-TCCATAAATGAAATGCATAA
1 CATAAATGAAATGCATAACGGTGCATTATCGGCATGAAATG-ATGT-CATAAATAAAATGCATAA
* *
9974333 CGGTGCATTATCGGCATGGAAGGATGTCATAAATGAAATGCAT
64 CAGTGCATTATCGGCATGAAAGGATGTCATAAATGAAATGCAT
9974376 AACGGTGCAT
Statistics
Matches: 100, Mismatches: 4, Indels: 4
0.93 0.04 0.04
Matches are distributed among these distances:
124 2 0.02
125 98 0.98
ACGTcount: A:0.40, C:0.13, G:0.22, T:0.25
Consensus pattern (125 bp):
CATAAATGAAATGCATAACGGTGCATTATCGGCATGAAATGATGTCATAAATAAAATGCATAACA
GTGCATTATCGGCATGAAAGGATGTCATAAATGAAATGCATTACCGGCATGAAAGGATGT
Found at i:9975707 original size:26 final size:26
Alignment explanation
Indices: 9975671--9975728 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
9975661 TTCCTGGAAG
9975671 AATTCAAGAAAAGTATGTGGGTGAGC
1 AATTCAAGAAAAGTATGTGGGTGAGC
9975697 AATTCAAGAAAAGTATGTGGGTGAGC
1 AATTCAAGAAAAGTATGTGGGTGAGC
*
9975723 AGTTCA
1 AATTCA
9975729 GACGGGAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.38, C:0.09, G:0.29, T:0.24
Consensus pattern (26 bp):
AATTCAAGAAAAGTATGTGGGTGAGC
Found at i:9979505 original size:95 final size:95
Alignment explanation
Indices: 9979370--9979571 Score: 264
Period size: 95 Copynumber: 2.1 Consensus size: 95
9979360 AATGTTGTGG
* * * *
9979370 GTATTGATACCAAGAGAAAGGTATTGATACCAGGGATTCCAGAATATCA-AAATGGTATTGATAC
1 GTATCGATACCAAGAGAAAGGTATCGATACCAGGAATTCCAGAATAT-AGAAATGGTATCGATAC
9979434 TG-AAAGGAAGTATCGGTACCATAGTATAGAA
65 TGAAAAGGAA-TATCGGTACCATAGTATAGAA
* * * * * * *
9979465 GTATCTATACTAAGATAAAGGTATCGATACCATGAATTCCATAATGTAGAAATTGTATCGATACT
1 GTATCGATACCAAGAGAAAGGTATCGATACCAGGAATTCCAGAATATAGAAATGGTATCGATACT
*
9979530 GAAAAGGCATATCGGTACCATAGTATAGAA
66 GAAAAGGAATATCGGTACCATAGTATAGAA
9979560 GTATCGATACCA
1 GTATCGATACCA
9979572 TGGTAGGGGT
Statistics
Matches: 91, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
94 1 0.01
95 84 0.92
96 6 0.07
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.27
Consensus pattern (95 bp):
GTATCGATACCAAGAGAAAGGTATCGATACCAGGAATTCCAGAATATAGAAATGGTATCGATACT
GAAAAGGAATATCGGTACCATAGTATAGAA
Found at i:9980047 original size:45 final size:45
Alignment explanation
Indices: 9979994--9980318 Score: 465
Period size: 45 Copynumber: 7.2 Consensus size: 45
9979984 AAAATGAATA
* * *
9979994 CATAAATGAAATTCATAATGGTACATTATCGGCATGAAAGGATGC
1 CATAAATGAAATGCATAACGGTGCATTATCGGCATGAAAGGATGC
* *
9980039 CTTAAATGAAATGCATAACGGTGCATTATTGGCATGAAAGGATGC
1 CATAAATGAAATGCATAACGGTGCATTATCGGCATGAAAGGATGC
* * *
9980084 TATAAATAAAATGCATAACGGTGCATTATCGGCATGAAATGATGC
1 CATAAATGAAATGCATAACGGTGCATTATCGGCATGAAAGGATGC
* * * *
9980129 CATAAAT-CAATGTATAACGGTTCATTATCTGCATGAAAGGATGC
1 CATAAATGAAATGCATAACGGTGCATTATCGGCATGAAAGGATGC
* * * *
9980173 CATAAATGAAATCCATAACAGTCCATTATCGTCATGAAAGGATGC
1 CATAAATGAAATGCATAACGGTGCATTATCGGCATGAAAGGATGC
9980218 CATAAATGAAATGCATAACGGTGCATTATCGGCATGAAAGGATGC
1 CATAAATGAAATGCATAACGGTGCATTATCGGCATGAAAGGATGC
**
9980263 CATAAATGAAATGCATAACGGTGCATTATAAGCATGAACA-GATGC
1 CATAAATGAAATGCATAACGGTGCATTATCGGCATGAA-AGGATGC
9980308 CATAAATGAAA
1 CATAAATGAAA
9980319 ATAAAGAATA
Statistics
Matches: 249, Mismatches: 29, Indels: 4
0.88 0.10 0.01
Matches are distributed among these distances:
44 39 0.16
45 209 0.84
46 1 0.00
ACGTcount: A:0.40, C:0.15, G:0.20, T:0.25
Consensus pattern (45 bp):
CATAAATGAAATGCATAACGGTGCATTATCGGCATGAAAGGATGC
Found at i:9980262 original size:134 final size:135
Alignment explanation
Indices: 9979994--9980318 Score: 465
Period size: 134 Copynumber: 2.4 Consensus size: 135
9979984 AAAATGAATA
* * * * * *
9979994 CATAAATGAAATTCATAATGGTACATTATCGGCATGAAAGGATGCCTTAAATGAAATGCATAACG
1 CATAAATGAAATGCATAACGGTACATTATCAGCATGAAAGGATGCCATAAATGAAATCCATAACA
* * * *
9980059 GTGCATTATTGGCATGAAAGGATGCTATAAATAAAATGCATAACGGTGCATTATCGGCATGAAAT
66 GTCCATTATCGGCATGAAAGGATGCCATAAATAAAATGCATAACGGTGCATTATCGGCATGAAAG
9980124 GATGC
131 GATGC
* * * *
9980129 CATAAAT-CAATGTATAACGGTTCATTATCTGCATGAAAGGATGCCATAAATGAAATCCATAACA
1 CATAAATGAAATGCATAACGGTACATTATCAGCATGAAAGGATGCCATAAATGAAATCCATAACA
* *
9980193 GTCCATTATCGTCATGAAAGGATGCCATAAATGAAATGCATAACGGTGCATTATCGGCATGAAAG
66 GTCCATTATCGGCATGAAAGGATGCCATAAATAAAATGCATAACGGTGCATTATCGGCATGAAAG
9980258 GATGC
131 GATGC
* *
9980263 CATAAATGAAATGCATAACGGTGCATTATAAGCATGAACA-GATGCCATAAATGAAA
1 CATAAATGAAATGCATAACGGTACATTATCAGCATGAA-AGGATGCCATAAATGAAA
9980319 ATAAAGAATA
Statistics
Matches: 168, Mismatches: 20, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
134 119 0.71
135 48 0.29
136 1 0.01
ACGTcount: A:0.40, C:0.15, G:0.20, T:0.25
Consensus pattern (135 bp):
CATAAATGAAATGCATAACGGTACATTATCAGCATGAAAGGATGCCATAAATGAAATCCATAACA
GTCCATTATCGGCATGAAAGGATGCCATAAATAAAATGCATAACGGTGCATTATCGGCATGAAAG
GATGC
Done.