Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008539.1 Hibiscus syriacus cultivar Beakdansim tig00111427_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: 6067759
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 31
Found at i:692858 original size:20 final size:21
Alignment explanation
Indices: 692827--692868 Score: 77
Period size: 20 Copynumber: 2.0 Consensus size: 21
692817 TTTACAAGTA
692827 AATTTATATAAATTTGATTCG
1 AATTTATATAAATTTGATTCG
692848 AATTT-TATAAATTTGATTCG
1 AATTTATATAAATTTGATTCG
692868 A
1 A
692869 CTTGAAAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.38, C:0.05, G:0.10, T:0.48
Consensus pattern (21 bp):
AATTTATATAAATTTGATTCG
Found at i:697193 original size:2 final size:2
Alignment explanation
Indices: 697186--697218 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
697176 AATAACGTTA
697186 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
697219 ACAAAACAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:697991 original size:32 final size:32
Alignment explanation
Indices: 697955--698016 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
697945 AAACTAAAAT
*
697955 ATAATGTTTTAATTCTATCTTAATTCCTAAAG
1 ATAATGTTTTAACTCTATCTTAATTCCTAAAG
*
697987 ATAATGTTTTGACTCTATCTTAATTCCTAA
1 ATAATGTTTTAACTCTATCTTAATTCCTAA
698017 TAAAATAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.32, C:0.15, G:0.06, T:0.47
Consensus pattern (32 bp):
ATAATGTTTTAACTCTATCTTAATTCCTAAAG
Found at i:707126 original size:14 final size:15
Alignment explanation
Indices: 707096--707136 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
707086 AAATCTAATC
*
707096 ATCCAAATCATAACA
1 ATCCAAAACATAACA
707111 ATCCAAAACA-AACA
1 ATCCAAAACATAACA
707125 ATCCAGAAACAT
1 ATCCA-AAACAT
707137 CAAAACAATC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 9 0.39
15 14 0.61
ACGTcount: A:0.56, C:0.27, G:0.02, T:0.15
Consensus pattern (15 bp):
ATCCAAAACATAACA
Found at i:709064 original size:23 final size:22
Alignment explanation
Indices: 709034--709092 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 22
709024 GCATGGCCTT
709034 GTGCATCGATGCACATTCAAGG
1 GTGCATCGATGCACATTCAAGG
* *
709056 CGTGCATCGGTGCACCTTCAAGG
1 -GTGCATCGATGCACATTCAAGG
* *
709079 ATGCATTGATGCAC
1 GTGCATCGATGCAC
709093 TGTTAGGTGT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
22 11 0.35
23 20 0.65
ACGTcount: A:0.24, C:0.25, G:0.27, T:0.24
Consensus pattern (22 bp):
GTGCATCGATGCACATTCAAGG
Found at i:714949 original size:19 final size:19
Alignment explanation
Indices: 714925--714976 Score: 88
Period size: 19 Copynumber: 2.7 Consensus size: 19
714915 AATAGCCAAA
714925 GTGCATCGATGCATGGCT-T
1 GTGCATCGATGCATGG-TAT
714944 GTGCATCGATGCATGGTAT
1 GTGCATCGATGCATGGTAT
714963 GTGCATCGATGCAT
1 GTGCATCGATGCAT
714977 AAAATGCATT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
18 1 0.03
19 31 0.97
ACGTcount: A:0.19, C:0.19, G:0.31, T:0.31
Consensus pattern (19 bp):
GTGCATCGATGCATGGTAT
Found at i:715012 original size:83 final size:84
Alignment explanation
Indices: 714880--715034 Score: 206
Period size: 83 Copynumber: 1.9 Consensus size: 84
714870 TGCACTAAGA
** *
714880 GTGCAACGATGCATAAAATGCATTTGATGTTTCAAAATAGCCAAAGTGCATCGATGCATGGCTT-
1 GTGCAACGATGCATAAAATGCATTCAATGTTTCAAAATAGCCAAAGTGCATCGATGCATGGATTG
714944 GTGCATCGATGCATGGTAT
66 GTGCATCGATGCATGGTAT
* ** * **
714963 GTGCATCGATGCATAAAATGCATTCAATG-TTCAATTTAATCCATGGTGCATCGATGCATGGATT
1 GTGCAACGATGCATAAAATGCATTCAATGTTTCAAAAT-AGCCAAAGTGCATCGATGCATGGATT
715027 GGTGCATC
65 GGTGCATC
715035 AGTGCATCAC
Statistics
Matches: 61, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
82 6 0.10
83 48 0.79
84 7 0.11
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.30
Consensus pattern (84 bp):
GTGCAACGATGCATAAAATGCATTCAATGTTTCAAAATAGCCAAAGTGCATCGATGCATGGATTG
GTGCATCGATGCATGGTAT
Found at i:716807 original size:20 final size:20
Alignment explanation
Indices: 716784--716822 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
716774 TTATTCAATG
*
716784 TCTCATAGGTTTAGGTTACA
1 TCTCATAGGTTTACGTTACA
716804 TCTCATAGGTTTACGTTAC
1 TCTCATAGGTTTACGTTAC
716823 GGTAGATACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.41
Consensus pattern (20 bp):
TCTCATAGGTTTACGTTACA
Found at i:718918 original size:25 final size:25
Alignment explanation
Indices: 718884--718945 Score: 97
Period size: 25 Copynumber: 2.5 Consensus size: 25
718874 ACTAAAAGGT
*
718884 CAAGATCTAAAAATACTGATTTATA
1 CAAGATCTAAAAATACTAATTTATA
*
718909 CAAGATCTAAAAATACTAATTTCTA
1 CAAGATCTAAAAATACTAATTTATA
*
718934 AAAGATCTAAAA
1 CAAGATCTAAAA
718946 GCTTAGGACC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.52, C:0.13, G:0.06, T:0.29
Consensus pattern (25 bp):
CAAGATCTAAAAATACTAATTTATA
Found at i:719312 original size:23 final size:22
Alignment explanation
Indices: 719246--719313 Score: 59
Period size: 23 Copynumber: 3.0 Consensus size: 22
719236 AACCTAATTT
*
719246 AAAAAATAAATTAACAATAAT-AA
1 AAAAAATAAAATAA-AA-AATAAA
* * *
719269 AAAAATTAAAA-AAATAGTAAA
1 AAAAAATAAAATAAAAAATAAA
719290 AACAAAATAAAATAAAAAATAAA
1 AA-AAAATAAAATAAAAAATAAA
719313 A
1 A
719314 TAAACACAAG
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
20 2 0.06
21 5 0.14
22 10 0.29
23 18 0.51
ACGTcount: A:0.78, C:0.03, G:0.01, T:0.18
Consensus pattern (22 bp):
AAAAAATAAAATAAAAAATAAA
Found at i:719764 original size:18 final size:18
Alignment explanation
Indices: 719720--719755 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
719710 TTTCTTTTAA
*
719720 AAAATAATAAAAACAATAC
1 AAAATAA-AAAAACAAAAC
719739 AAAATAAAAAAACAAAA
1 AAAATAAAAAAACAAAA
719756 TAAATTAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.81, C:0.08, G:0.00, T:0.11
Consensus pattern (18 bp):
AAAATAAAAAAACAAAAC
Found at i:720117 original size:451 final size:445
Alignment explanation
Indices: 719291--720163 Score: 1261
Period size: 451 Copynumber: 1.9 Consensus size: 445
719281 AATAGTAAAA
*
719291 ACAAAATAAAATAAAAAATAAAATAAACACAAGAACAAGGACCTAATTGCATAAAATAAAATAAC
1 ACAAAATAAAAAAAAAAATAAAATAAACACAAGAACAAGGACCTAATTGCATAAAATAAAATAAC
* * *
719356 AGTTACTAAAATGCAAGAAAATAAAAGTTAGTAGTTAAATAAGAAATAAATAGTGACCAAAATAC
66 AGTTACTAAAATACAAGAAAATAAAAGTTAGTAATTAAATAAGAAATAAATAGTAACCAAAATAC
* * * *
719421 AAAAACACGGCAAACATAGGAGGCCTGGAATAAAATTTTACAAACACAAAAAAGCATACATGTAA
131 AAAAACACGACAAACATAGGAGGCATGGAATAAAATTTTACAAAAAAAAAAAAGCATACATGTAA
*
719486 AATAGGAAAATTAGGAAAACAATCCCTGACAATGACTATTTTGAAAAATGCGAGAAAGTTTGGGG
196 AATAGGAAAATTAGGAAAACAATCCCTGACAACGACTATTTTGAAAAA-GCGAGAAAGTTTGGGG
** *
719551 GACTTAAAATGAAATTATACCAAAAATTATAAAGCATAAAAAGAAAAGGGAAAATTATAAAAATG
260 GACTTAAAACAAAATTATACCAAAAATTATAAAGCATAAAAAGAAAAGGGAAAATTATAAAAACG
* * * * * * * *
719616 GTCCATTCTAGTGACCATTTTGTAAGAACACGGGAAAGTTTAGTGGACTTAAAACGTGGTTTACC
325 ATCCATTCCAGTGACAATTTTGTAAAAACACGAGAAAATTTAGGGGACTTAAAACGTGATTTACC
719681 CCAAAATCTTTTCTATAAATACAAACATTTTTCTTTTAAAAAATAATAAAAACAAT
390 CCAAAATCTTTTCTATAAATACAAACATTTTTCTTTTAAAAAATAATAAAAACAAT
* * *
719737 ACAAAATAAAAAAACAAAATAAATTAAACACAAGTACAAGTACCTAATTGCATAAAATAAAATAA
1 ACAAAATAAAAAAA-AAAATAAAATAAACACAAGAACAAGGACCTAATTGCATAAAATAAAATAA
*
719802 CATTTACTAAAATACAAGAAAATAAAAGTTAGTAATTAAATAAGAAATAAATAGTAACCAAAATG
65 CAGTTACTAAAATACAAGAAAATAAAAGTTAGTAATTAAATAAGAAATAAATAGTAACCAAAAT-
* *
719867 A-AAAAACACGACAAACATAAGG-GGACATGGAATGAGATTTTACACACAAAAAAACAAAGCATA
129 ACAAAAACACGACAAACAT-AGGAGG-CATGGAATAAAATTTTACA-A-AAAAAAA-AAAGCATA
* * * *
719930 CATGTAAAATGGGAAAATTAGGAAAATAATCCCTGATAGCGACTATTTTGTAAAAA-CGTAGAAA
189 CATGTAAAATAGGAAAATTAGGAAAACAATCCCTGACAACGACTATTTTG-AAAAAGCG-AG-AA
*
719994 AGTTT-GGGGACTTAAAACAAAATTATACCAAAAGTTATAAAGCATAAATAA-AAAAGGGAAAAT
251 AGTTTGGGGGACTTAAAACAAAATTATACCAAAAATTATAAAGCATAAA-AAGAAAAGGGAAAAT
* * *
720057 TATAAAAACGATCCCTTCCATTGACAATTTTGTAAAAACACGAGAAAATTTAGGGGACTTAAAAT
315 TATAAAAACGATCCATTCCAGTGACAATTTTGTAAAAACACGAGAAAATTTAGGGGACTTAAAAC
** * *
720122 GTGATTTACCCTGAAATTTTTTCTATAGATACAAACATTTTT
380 GTGATTTACCCCAAAATCTTTTCTATAAATACAAACATTTTT
720164 TTTACAATTT
Statistics
Matches: 378, Mismatches: 38, Indels: 17
0.87 0.09 0.04
Matches are distributed among these distances:
446 13 0.03
447 125 0.33
448 20 0.05
449 1 0.00
450 7 0.02
451 198 0.52
452 14 0.04
ACGTcount: A:0.51, C:0.12, G:0.13, T:0.24
Consensus pattern (445 bp):
ACAAAATAAAAAAAAAAATAAAATAAACACAAGAACAAGGACCTAATTGCATAAAATAAAATAAC
AGTTACTAAAATACAAGAAAATAAAAGTTAGTAATTAAATAAGAAATAAATAGTAACCAAAATAC
AAAAACACGACAAACATAGGAGGCATGGAATAAAATTTTACAAAAAAAAAAAAGCATACATGTAA
AATAGGAAAATTAGGAAAACAATCCCTGACAACGACTATTTTGAAAAAGCGAGAAAGTTTGGGGG
ACTTAAAACAAAATTATACCAAAAATTATAAAGCATAAAAAGAAAAGGGAAAATTATAAAAACGA
TCCATTCCAGTGACAATTTTGTAAAAACACGAGAAAATTTAGGGGACTTAAAACGTGATTTACCC
CAAAATCTTTTCTATAAATACAAACATTTTTCTTTTAAAAAATAATAAAAACAAT
Found at i:721556 original size:203 final size:203
Alignment explanation
Indices: 721270--721640 Score: 532
Period size: 203 Copynumber: 1.8 Consensus size: 203
721260 TGATCCAAAG
* ** * * *
721270 TGATGCTGATCCAACTCCATATGTGATGGACGAGTGAAATGATGATGGTGATCCAACTCCTTATG
1 TGATGCTGATACAACTCCATATGTGACAGACGAGTAAAATGATGATGCTGATCCAACTCCTTATA
* * * *
721335 TGATGGAATGTAGCTAAGGTTGAA-ACAATTCTTCTCATTATGAACTTCTTCTCCCTCGCT-GGA
66 AGATGGAACGTAGCTAAGGTTGAACA-AATTCTTCTAATTATGAACTTCTTCTCCCTC-ATAGGA
* *
721398 TGAGTTTTTCTTATTATGAACTCTCCACTAGAAATATTGATCCATCTCTTTCTGTGATAGAATCA
129 TAAGTTTTTCTCATTATGAACTCTCCACTAGAAATATTGATCCATCTCTTTCTGTGATAGAATCA
721463 AACAAAGTGA
194 AACAAAGTGA
* * * *
721473 TGATGCTGATATAACTCCATATGTGACAGATGAGTAAAATGATGGTGCTGTTCCAACTCCTTATA
1 TGATGCTGATACAACTCCATATGTGACAGACGAGTAAAATGATGATGCTGATCCAACTCCTTATA
*
721538 AGATGGAAACG-AGCTAAGGTTGAACAAATTCTTCTAATTATGAACTTCTTCTGCCTCATAGGAT
66 AGATGG-AACGTAGCTAAGGTTGAACAAATTCTTCTAATTATGAACTTCTTCTCCCTCATAGGAT
*
721602 AAGTTTTTCTCATTATGAACTCTCCACTAGAAATGTTGA
130 AAGTTTTTCTCATTATGAACTCTCCACTAGAAATATTGA
721641 GCCAAGGTTG
Statistics
Matches: 147, Mismatches: 18, Indels: 6
0.86 0.11 0.04
Matches are distributed among these distances:
202 1 0.01
203 142 0.97
204 4 0.03
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (203 bp):
TGATGCTGATACAACTCCATATGTGACAGACGAGTAAAATGATGATGCTGATCCAACTCCTTATA
AGATGGAACGTAGCTAAGGTTGAACAAATTCTTCTAATTATGAACTTCTTCTCCCTCATAGGATA
AGTTTTTCTCATTATGAACTCTCCACTAGAAATATTGATCCATCTCTTTCTGTGATAGAATCAAA
CAAAGTGA
Found at i:721708 original size:91 final size:91
Alignment explanation
Indices: 721548--721819 Score: 409
Period size: 91 Copynumber: 3.0 Consensus size: 91
721538 AGATGGAAAC
* * * * * * *
721548 GAGCTAAGGTTGAACAAATTCTTCTAATTATGAACTTCTTCTGCCTCATAGGATAAGTTTTTCTC
1 GAGCCAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATAAGTTCTTCTC
721613 ATTATGAACTCTCCACTAGAAATGTT
66 ATTATGAACTCTCCACTAGAAATGTT
*
721639 GAGCCAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTC
1 GAGCCAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATAAGTTCTTCTC
* *
721704 ATTATGAACTCCCCACCAGAAATGTT
66 ATTATGAACTCTCCACTAGAAATGTT
* *
721730 GATCCAAGGTTGAGCAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATAAGTTCTTCTC
1 GAGCCAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATAAGTTCTTCTC
* * *
721795 GTTATGAACTCTTCACTGGAAATGT
66 ATTATGAACTCTCCACTAGAAATGT
721820 CAATCCCTCA
Statistics
Matches: 163, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
91 163 1.00
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.36
Consensus pattern (91 bp):
GAGCCAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATAAGTTCTTCTC
ATTATGAACTCTCCACTAGAAATGTT
Found at i:721955 original size:227 final size:227
Alignment explanation
Indices: 721650--722187 Score: 855
Period size: 227 Copynumber: 2.4 Consensus size: 227
721640 AGCCAAGGTT
* *
721650 GAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTC-GTTGGATGAGTTCTTCTCATTATGAACT
1 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACT
** * *
721714 CCCCACCAGAAATGTTGATCCAAGGTTGAGCAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGT
66 CCCCACTGGAAATGTTGATCCAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGT
* * *
721779 TGGATAAGTTCTTCTCGTTATGAACTCTTCACTGGAAATGTCAATCCCTCAAGCGAGGCGTCACT
131 CGGATAAGTTCTTCTCATTATGAACTCTTCACTGGAAATGTCAATCCCTCAAACGAGGCGTCACT
* *
721844 GATTCGAAATGCCGTGAATCGAGTTATAGGCC
196 GATTCGAAATGCCATGAATCGAGTGATAGGCC
*
721876 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCAGATGAGTTCTTCTCATTATGAACT
1 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACT
*
721941 CCCCACTGGAAATGTTGATCCAAGATTGAACAAGTTCTTCTTATTATGAACTTCTTCTCCCTCGT
66 CCCCACTGGAAATGTTGATCCAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGT
* * * * *
722006 CGGATGAGTTCTTTTTATTATGAACTCTTCACTGGAAATGTCAATCCCTTAAATGAGGCGTCACT
131 CGGATAAGTTCTTCTCATTATGAACTCTTCACTGGAAATGTCAATCCCTCAAACGAGGCGTCACT
* *
722071 GATTCGAAATGTCATGAATCGAGTGATAGGTC
196 GATTCGAAATGCCATGAATCGAGTGATAGGCC
*
722103 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTTATTATGAACT
1 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACT
*
722168 CTCCA-TCGGAAATGTTGATC
66 CCCCACT-GGAAATGTTGATC
722188 GGTTTATCTT
Statistics
Matches: 287, Mismatches: 23, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
226 36 0.13
227 251 0.87
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (227 bp):
GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACT
CCCCACTGGAAATGTTGATCCAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGT
CGGATAAGTTCTTCTCATTATGAACTCTTCACTGGAAATGTCAATCCCTCAAACGAGGCGTCACT
GATTCGAAATGCCATGAATCGAGTGATAGGCC
Found at i:722046 original size:91 final size:92
Alignment explanation
Indices: 721876--722046 Score: 272
Period size: 91 Copynumber: 1.9 Consensus size: 92
721866 GTTATAGGCC
721876 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCAGATGAGTTCTTCTCATTATGAACT
1 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCAGATGAGTTCTTCTCATTATGAACT
721941 CCCCACTGGAAATGTTGATCCAAGATT
66 CCCCACTGGAAATGTTGATCCAAGATT
* * * * *
721968 GAACAAGTTCTTCTTATTATGAACTTCTTCTCCCTC-GTCGGATGAGTTCTTTTTATTATGAACT
1 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCAGATGAGTTCTTCTCATTATGAACT
**
722032 CTTCACTGGAAATGT
66 CCCCACTGGAAATGT
722047 CAATCCCTTA
Statistics
Matches: 72, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
91 38 0.53
92 34 0.47
ACGTcount: A:0.24, C:0.23, G:0.15, T:0.38
Consensus pattern (92 bp):
GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCAGATGAGTTCTTCTCATTATGAACT
CCCCACTGGAAATGTTGATCCAAGATT
Found at i:724467 original size:21 final size:21
Alignment explanation
Indices: 724437--724485 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
724427 TTTGATATGT
724437 TTTA-TTTCTTCTTCTTTTTC
1 TTTATTTTCTTCTTCTTTTTC
724457 TTTATTTTCTTCTTCTTTTTC
1 TTTATTTTCTTCTTCTTTTTC
724478 TTTATTTT
1 TTTATTTT
724486 TTTTTTTGCT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 4 0.14
21 24 0.86
ACGTcount: A:0.06, C:0.16, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTATTTTCTTCTTCTTTTTC
Found at i:724498 original size:13 final size:13
Alignment explanation
Indices: 724449--724586 Score: 59
Period size: 14 Copynumber: 10.1 Consensus size: 13
724439 TATTTCTTCT
*
724449 TCTTTTTCTTTATTT
1 TCTTTTT-TTT-TTC
*
724464 TCTTCTTCTTTTTC
1 TCTT-TTTTTTTTC
* *
724478 TTTATTTTTTTTTT
1 TCT-TTTTTTTTTC
724492 TGCTTTTTTTTTTC
1 T-CTTTTTTTTTTC
724506 TC----TTTTTTC
1 TCTTTTTTTTTTC
* **
724515 TCTATCTTTTGCTC
1 TCT-TTTTTTTTTC
724529 TCTTTTTTCTCTCTTC
1 TCTTTTTT-T-T-TTC
* *
724545 TCTCTTTTTTCTC
1 TCTTTTTTTTTTC
724558 TCTTTTTATTTTTC
1 TCTTTTT-TTTTTC
*
724572 CCTTTTTTTGTTTC
1 TCTTTTTTT-TTTC
724586 T
1 T
724587 TTTATGTTTT
Statistics
Matches: 92, Mismatches: 18, Indels: 27
0.67 0.13 0.20
Matches are distributed among these distances:
9 9 0.10
13 15 0.16
14 47 0.51
15 10 0.11
16 11 0.12
ACGTcount: A:0.03, C:0.20, G:0.02, T:0.75
Consensus pattern (13 bp):
TCTTTTTTTTTTC
Found at i:724513 original size:37 final size:37
Alignment explanation
Indices: 724451--724569 Score: 91
Period size: 37 Copynumber: 3.1 Consensus size: 37
724441 TTTCTTCTTC
* *
724451 TTTTTCTTTATTTTCTTCTTCTTTTTCTTTATTTTTT
1 TTTTTCTTTATTTTCTTCTTCTTTTTCTCTATCTTTT
*
724488 TTTTTGCTTT-TTTTTTTC-TCTTTTTTCTCTATCTTTT
1 TTTTT-CTTTATTTTCTTCTTC-TTTTTCTCTATCTTTT
** * * *
724525 GCTCTCTTTTTTCTCTCTTCTCTCTTTTT-TCTCTCTTTT
1 TTTTTCTTTATT-T-TCTTCT-TCTTTTTCTCTATCTTTT
724564 TATTTT
1 T-TTTT
724570 TCCCTTTTTT
Statistics
Matches: 63, Mismatches: 11, Indels: 13
0.72 0.13 0.15
Matches are distributed among these distances:
36 6 0.10
37 30 0.48
38 5 0.08
39 13 0.21
40 7 0.11
41 2 0.03
ACGTcount: A:0.03, C:0.19, G:0.02, T:0.76
Consensus pattern (37 bp):
TTTTTCTTTATTTTCTTCTTCTTTTTCTCTATCTTTT
Found at i:724541 original size:11 final size:11
Alignment explanation
Indices: 724497--724564 Score: 72
Period size: 11 Copynumber: 6.5 Consensus size: 11
724487 TTTTTTGCTT
*
724497 TTTTTTTTCTC
1 TTTTTTCTCTC
*
724508 TTTTTTCTCTA
1 TTTTTTCTCTC
*
724519 TCTTTTGCTCTC
1 T-TTTTTCTCTC
724531 TTTTTTCTCTC
1 TTTTTTCTCTC
724542 ----TTCTCTC
1 TTTTTTCTCTC
724549 TTTTTTCTCTC
1 TTTTTTCTCTC
724560 TTTTT
1 TTTTT
724565 ATTTTTCCCT
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
7 7 0.15
11 31 0.66
12 9 0.19
ACGTcount: A:0.01, C:0.25, G:0.01, T:0.72
Consensus pattern (11 bp):
TTTTTTCTCTC
Found at i:724563 original size:9 final size:9
Alignment explanation
Indices: 724501--724563 Score: 54
Period size: 9 Copynumber: 6.4 Consensus size: 9
724491 TTGCTTTTTT
*
724501 TTTTCTCTT
1 TTTTCTCTC
724510 TTTTCTCTATC
1 TTTTCTC--TC
724521 TTTTGCTCTC
1 TTTT-CTCTC
724531 TTTTTTCTCTC
1 --TTTTCTCTC
* *
724542 TTCTCTCTT
1 TTTTCTCTC
724551 TTTTCTCTC
1 TTTTCTCTC
724560 TTTT
1 TTTT
724564 TATTTTTCCC
Statistics
Matches: 44, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
9 25 0.57
10 2 0.05
11 10 0.23
12 7 0.16
ACGTcount: A:0.02, C:0.27, G:0.02, T:0.70
Consensus pattern (9 bp):
TTTTCTCTC
Found at i:724571 original size:16 final size:18
Alignment explanation
Indices: 724526--724561 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
724516 CTATCTTTTG
724526 CTCTCTTTTTTCTCTCTT
1 CTCTCTTTTTTCTCTCTT
724544 CTCTCTTTTTTCTCTCTT
1 CTCTCTTTTTTCTCTCTT
724562 TTTATTTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (18 bp):
CTCTCTTTTTTCTCTCTT
Found at i:729632 original size:5 final size:5
Alignment explanation
Indices: 729622--729681 Score: 63
Period size: 5 Copynumber: 11.8 Consensus size: 5
729612 TCCCCCCCCT
729622 TTTTA TTTTA TTTTA TTTTTTA TTTTA TTTTA TTTT- TTATT- TTTTA
1 TTTTA TTTTA TTTTA --TTTTA TTTTA TTTTA TTTTA TT-TTA TTTTA
729668 TTTT- TTATTA TTTT
1 TTTTA TT-TTA TTTT
729682 TTATGGGTAA
Statistics
Matches: 49, Mismatches: 0, Indels: 12
0.80 0.00 0.20
Matches are distributed among these distances:
4 6 0.12
5 36 0.73
6 2 0.04
7 5 0.10
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTA
Found at i:729643 original size:17 final size:16
Alignment explanation
Indices: 729621--729685 Score: 89
Period size: 17 Copynumber: 4.0 Consensus size: 16
729611 TTCCCCCCCC
729621 TTTTTATTTTATTTTAT
1 TTTTTATTTT-TTTTAT
729638 TTTTTATTTTATTTTAT
1 TTTTTATTTT-TTTTAT
729655 TTTTTA--TTTTTTAT
1 TTTTTATTTTTTTTAT
729669 TTTTTATTATTTTTTAT
1 TTTTTATT-TTTTTTAT
729686 GGGTAAAATT
Statistics
Matches: 45, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
14 12 0.27
15 2 0.04
17 31 0.69
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (16 bp):
TTTTTATTTTTTTTAT
Found at i:729644 original size:12 final size:12
Alignment explanation
Indices: 729627--729671 Score: 74
Period size: 12 Copynumber: 3.8 Consensus size: 12
729617 CCCCTTTTTA
729627 TTTTATTTTATT
1 TTTTATTTTATT
729639 TTTTATTTTATT
1 TTTTATTTTATT
729651 TTATT-TTTTATT
1 TT-TTATTTTATT
729663 TTTTATTTT
1 TTTTATTTT
729672 TTATTATTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
11 2 0.06
12 27 0.87
13 2 0.06
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTTATTTTATT
Found at i:729664 original size:24 final size:24
Alignment explanation
Indices: 729622--729685 Score: 98
Period size: 24 Copynumber: 2.8 Consensus size: 24
729612 TCCCCCCCCT
729622 TTTTATTTTA--TTTTATTTTTTA
1 TTTTATTTTATTTTTTATTTTTTA
729644 TTTTATTTTATTTTTTATTTTTTA
1 TTTTATTTTATTTTTTATTTTTTA
729668 TTTT-TTATTATTTTTTAT
1 TTTTATT-TTATTTTTTAT
729686 GGGTAAAATT
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
22 10 0.26
23 2 0.05
24 27 0.69
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (24 bp):
TTTTATTTTATTTTTTATTTTTTA
Found at i:729685 original size:7 final size:7
Alignment explanation
Indices: 729632--729681 Score: 64
Period size: 7 Copynumber: 6.6 Consensus size: 7
729622 TTTTATTTTA
729632 TTTTATT
1 TTTTATT
729639 TTTTATTTT
1 TTTTA--TT
729648 ATTTTATT
1 -TTTTATT
729656 TTTTATT
1 TTTTATT
729663 TTTTATT
1 TTTTATT
729670 TTTTATT
1 TTTTATT
729677 ATTTT
1 -TTTT
729682 TTATGGGTAA
Statistics
Matches: 39, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
7 26 0.67
8 6 0.15
9 2 0.05
10 5 0.13
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTTATT
Found at i:730090 original size:29 final size:28
Alignment explanation
Indices: 730034--730092 Score: 73
Period size: 29 Copynumber: 2.1 Consensus size: 28
730024 TAATTTTTAT
*
730034 TTTTTAAAAAATAAATAAACCCTTAAAC
1 TTTTTAAAAAATAAATAAACCCTCAAAC
** *
730062 TTTTTAAAAAATCAAATTGATCCTCAAAC
1 TTTTTAAAAAAT-AAATAAACCCTCAAAC
730091 TT
1 TT
730093 GAGAAGAAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 12 0.46
29 14 0.54
ACGTcount: A:0.47, C:0.15, G:0.02, T:0.36
Consensus pattern (28 bp):
TTTTTAAAAAATAAATAAACCCTCAAAC
Found at i:739511 original size:12 final size:12
Alignment explanation
Indices: 739468--739517 Score: 50
Period size: 12 Copynumber: 4.1 Consensus size: 12
739458 CATAGTATTT
739468 TTATTTTACTTG
1 TTATTTTACTTG
739480 TTCATTTT--TTG
1 TT-ATTTTACTTG
739491 TATAGTTTTACTTG
1 T-TA-TTTTACTTG
*
739505 TTATTTTCCTTG
1 TTATTTTACTTG
739517 T
1 T
739518 CTTTTTCAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 10
0.74 0.02 0.23
Matches are distributed among these distances:
11 5 0.16
12 16 0.50
13 7 0.22
14 4 0.12
ACGTcount: A:0.14, C:0.10, G:0.10, T:0.66
Consensus pattern (12 bp):
TTATTTTACTTG
Found at i:745215 original size:27 final size:26
Alignment explanation
Indices: 745152--745215 Score: 60
Period size: 27 Copynumber: 2.3 Consensus size: 26
745142 TGACACCTTT
745152 TGTAATTGCATTTAGCATTTTCATTGCA
1 TGTAATT--ATTTAGCATTTTCATTGCA
*
745180 TGTATTTATTTAAGCATTTCTGCA-TGCA
1 TGTAATTATTT-AGCATTT-T-CATTGCA
745208 T-TAATTAT
1 TGTAATTAT
745216 GAAAACATGG
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
26 4 0.13
27 13 0.42
28 12 0.39
29 2 0.06
ACGTcount: A:0.27, C:0.12, G:0.12, T:0.48
Consensus pattern (26 bp):
TGTAATTATTTAGCATTTTCATTGCA
Found at i:749462 original size:37 final size:37
Alignment explanation
Indices: 749394--749508 Score: 153
Period size: 37 Copynumber: 3.1 Consensus size: 37
749384 GGAGATTGGG
* *
749394 GCAAAGTCAATCTTAAGCCTTCGCCGAAGAGTAGTGAA
1 GCAAA-TCAATCTTAAGCCTTCACCGGAGAGTAGTGAA
* *
749432 GCAAATCAATCTTGAGCTTTCACCGGAGAGTAGTGAA
1 GCAAATCAATCTTAAGCCTTCACCGGAGAGTAGTGAA
* *
749469 GCAAA-CCATCTTAAGCCTTCACCAGAG-GTAGTGAA
1 GCAAATCAATCTTAAGCCTTCACCGGAGAGTAGTGAA
749504 GCAAA
1 GCAAA
749509 CTCATTTGTA
Statistics
Matches: 69, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
35 13 0.19
36 18 0.26
37 33 0.48
38 5 0.07
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.21
Consensus pattern (37 bp):
GCAAATCAATCTTAAGCCTTCACCGGAGAGTAGTGAA
Found at i:749490 original size:36 final size:36
Alignment explanation
Indices: 749403--749524 Score: 147
Period size: 37 Copynumber: 3.3 Consensus size: 36
749393 GGCAAAGTCA
* * *
749403 ATCTTAAGCCTTCGCCGAAGAGTAGTGAAGCAAATCA
1 ATCTTAAGCCTTCACCGGAGAGTAGTGAAGCAAA-CC
* *
749440 ATCTTGAGCTTTCACCGGAGAGTAGTGAAGCAAACC
1 ATCTTAAGCCTTCACCGGAGAGTAGTGAAGCAAACC
*
749476 ATCTTAAGCCTTCACCAGAG-GTAGTGAAGCAAACTC
1 ATCTTAAGCCTTCACCGGAGAGTAGTGAAGCAAAC-C
*
749512 ATTTGTAAGCCTT
1 ATCT-TAAGCCTT
749525 TAGAGCAAGA
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
35 14 0.19
36 22 0.30
37 38 0.51
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (36 bp):
ATCTTAAGCCTTCACCGGAGAGTAGTGAAGCAAACC
Found at i:750144 original size:215 final size:215
Alignment explanation
Indices: 749510--750656 Score: 1879
Period size: 215 Copynumber: 5.3 Consensus size: 215
749500 TGAAGCAAAC
*
749510 TCATTTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGG
1 TCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGG
* * *
749575 ATGTTTTCATATGAATTTGAAAATGAGAAAATAATGTTTTAAGAAGATGAAATTTTTGAAAACTA
66 ATGTTTTCACATGAATTTGAAAATGAAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTA
* *
749640 AGAA-GATGATTTCCAAAATTTCACAATTTATAAGTCCTTCGAGCCATCAGTAAGTCTTTCGAGC
131 AGAATG-TGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGC
749704 ATGATGCTTAAATCCTTCGGG
195 ATGATGCTTAAATCCTTCGGG
* * *
749725 TCATCTGTAAACCTTTAGAGCAAGATGATAAGTCCTTCGGGACATCCATAAAACCTTCGGGTAGG
1 TCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGG
*
749790 ATGTTTTCACATGAATTTGAAAATGAAAAAAATGATGTTTTAAGAAGATGAAATTTTTTAAAACT
66 ATGTTTTCACATGAATTTGAAAATG-AAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACT
* *
749855 AAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATTAGTAAGTCTTTCGAGC
130 AAGAATGTGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGC
*
749920 ATTATGCTTAAATCCTTCGGG
195 ATGATGCTTAAATCCTTCGGG
* * *
749941 TCATTTGTAAGCCATTAGAGCAAGATGATAAGTCCTTCAGGCCATCCATAAGACCTTCGGGTAGG
1 TCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGG
750006 ATGTTTTCACATGAATTTGAAAATGAAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTA
66 ATGTTTTCACATGAATTTGAAAATGAAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTA
* *
750071 AGAATGCGGTTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCA
131 AGAATGTGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCA
750136 TGATGCTTAAATCCTTCGGG
196 TGATGCTTAAATCCTTCGGG
*
750156 TCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGACCATCCATAAGACCTTCGGGTAGG
1 TCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGG
750221 ATGTTTTCACATGAATTTGAAAATGAAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTA
66 ATGTTTTCACATGAATTTGAAAATGAAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTA
* * *
750286 AGAATGTGATTTTCAAAATTTCACAATGCTTA-AA-TCATTCAGGTCATCAGTAAGTCTTTCGAG
131 AGAATGTGATTTTCAAAATTTCACAAT--TTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAG
750349 CATGATGCTTAAATCCTTCGGG
194 CATGATGCTTAAATCCTTCGGG
* * * *
750371 TCATCTGTAAGCCTTTTGAGCAAGATGACAAGTCCTTCGGGCCATCCATAAAAACTTCGGGTAGG
1 TCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGG
*
750436 ATGTTTTCACATGAATTTGAAAATG-AAAAATGATGTGTTAAGAAGATGAAATTTTTGAAAACTA
66 ATGTTTTCACATGAATTTGAAAATGAAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTA
*
750500 AGAATGTGATTTTCAAAATTTCACAATTTATAAGTCCTTCAGGCCATCAGTAAGTCTTTCGAGCA
131 AGAATGTGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCA
*
750565 TGATCCTTAAATCCTTCGGG
196 TGATGCTTAAATCCTTCGGG
* * * * * * * * * *
750585 TCATTTGTGAGTCTCTCGAGCAAGATGATAAATCCTTCGGGTCATTCATAAGACCTTCGAGCAGG
1 TCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGG
750650 ATGTTTT
66 ATGTTTT
750657 GCACCAAGAT
Statistics
Matches: 872, Mismatches: 54, Indels: 13
0.93 0.06 0.01
Matches are distributed among these distances:
212 3 0.00
213 2 0.00
214 172 0.20
215 490 0.56
216 201 0.23
217 4 0.00
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32
Consensus pattern (215 bp):
TCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGG
ATGTTTTCACATGAATTTGAAAATGAAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTA
AGAATGTGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCA
TGATGCTTAAATCCTTCGGG
Found at i:750166 original size:42 final size:41
Alignment explanation
Indices: 750100--750201 Score: 114
Period size: 42 Copynumber: 2.5 Consensus size: 41
750090 TTCACAATTT
* * * *
750100 ATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATG
1 ATAAATCCTTCGGGCCATCAGTAAGCCTTTAGAGCAAGATG
* * *
750141 CTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATG
1 -ATAAATCCTTCGGGCCATCAGTAAGCCTTTAGAGCAAGATG
* *
750183 ATAAGTCCTTCGGACCATC
1 ATAAATCCTTCGGGCCATC
750202 CATAAGACCT
Statistics
Matches: 49, Mismatches: 11, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
41 15 0.31
42 34 0.69
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (41 bp):
ATAAATCCTTCGGGCCATCAGTAAGCCTTTAGAGCAAGATG
Found at i:750373 original size:42 final size:42
Alignment explanation
Indices: 750311--750397 Score: 120
Period size: 42 Copynumber: 2.1 Consensus size: 42
750301 AAATTTCACA
* *
750311 ATGCTTAAATCATTCAGGTCATCAGTAAGTCTTTCGAGCATG
1 ATGCTTAAATCATTCAGGTCATCAGTAAGCCTTTCGAGCAAG
* * * *
750353 ATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTTGAGCAAG
1 ATGCTTAAATCATTCAGGTCATCAGTAAGCCTTTCGAGCAAG
750395 ATG
1 ATG
750398 ACAAGTCCTT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (42 bp):
ATGCTTAAATCATTCAGGTCATCAGTAAGCCTTTCGAGCAAG
Found at i:750598 original size:42 final size:41
Alignment explanation
Indices: 750552--750630 Score: 113
Period size: 41 Copynumber: 1.9 Consensus size: 41
750542 GCCATCAGTA
* * *
750552 AGTCTTTCGAGCATGATCCTTAAATCCTTCGGGTCATTTGTG
1 AGTCTCTCGAGCAAGAT-CATAAATCCTTCGGGTCATTTGTG
*
750594 AGTCTCTCGAGCAAGATGATAAATCCTTCGGGTCATT
1 AGTCTCTCGAGCAAGATCATAAATCCTTCGGGTCATT
750631 CATAAGACCT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
41 18 0.55
42 15 0.45
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.34
Consensus pattern (41 bp):
AGTCTCTCGAGCAAGATCATAAATCCTTCGGGTCATTTGTG
Found at i:750645 original size:41 final size:41
Alignment explanation
Indices: 750572--750652 Score: 101
Period size: 41 Copynumber: 2.0 Consensus size: 41
750562 GCATGATCCT
** * *
750572 TAAATCCTTCGGGTCATTTGTGAGTCTCTCGAGCAAGATGA
1 TAAATCCTTCGGGTCATTCATAAGCCTCTCGAGCAAGATGA
*
750613 TAAATCCTTCGGGTCATTCATAAGACCT-TCGAGCAGGATG
1 TAAATCCTTCGGGTCATTCATAAG-CCTCTCGAGCAAGATG
750653 TTTTGCACCA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
41 32 0.94
42 2 0.06
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (41 bp):
TAAATCCTTCGGGTCATTCATAAGCCTCTCGAGCAAGATGA
Found at i:753735 original size:19 final size:19
Alignment explanation
Indices: 753711--753747 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
753701 GTCCATAATT
753711 CAAAATATAATTAAATCTC
1 CAAAATATAATTAAATCTC
*
753730 CAAAATATAATTTAATCT
1 CAAAATATAATTAAATCT
753748 TACAATATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (19 bp):
CAAAATATAATTAAATCTC
Found at i:760472 original size:18 final size:20
Alignment explanation
Indices: 760423--760473 Score: 70
Period size: 21 Copynumber: 2.6 Consensus size: 20
760413 GTTCACACAA
760423 GAGTATCGATACTTATCCCT
1 GAGTATCGATACTTATCCCT
760443 GTAGTATCGATAC-TA-CCCT
1 G-AGTATCGATACTTATCCCT
*
760462 GAGTATTGATAC
1 GAGTATCGATAC
760474 AATTTAAGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 10 0.34
19 5 0.17
20 3 0.10
21 11 0.38
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (20 bp):
GAGTATCGATACTTATCCCT
Found at i:772653 original size:20 final size:19
Alignment explanation
Indices: 772606--772653 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
772596 AATGATTTTC
* * *
772606 TTTTGAAAGCTAAAATGGA
1 TTTTGAAAACCAAAATGAA
*
772625 TTTTAAAAACCAAAATGAAA
1 TTTTGAAAACCAAAATG-AA
772645 TTTTGAAAA
1 TTTTGAAAA
772654 AGGATTTAGA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
19 14 0.61
20 9 0.39
ACGTcount: A:0.50, C:0.06, G:0.12, T:0.31
Consensus pattern (19 bp):
TTTTGAAAACCAAAATGAA
Found at i:775604 original size:300 final size:300
Alignment explanation
Indices: 775056--775654 Score: 1144
Period size: 300 Copynumber: 2.0 Consensus size: 300
775046 TTAAAACATG
*
775056 TATTTGATATATATAATAGATTTCATATTTAATAATTTTTGTTAATTAACCGATTTCAAACCCAA
1 TATTTAATATATATAATAGATTTCATATTTAATAATTTTTGTTAATTAACCGATTTCAAACCCAA
775121 TTAATCGTTAAATGAATATTGAAAAAAATGGTAACCGTTCCTCGATCGAACTAATTCAGTTGGTT
66 TTAATCGTTAAATGAATATTGAAAAAAATGGTAACCGTTCCTCGATCGAACTAATTCAGTTGGTT
** *
775186 GGTTAATTCGGTTAAAACTGGAAAATGAATACCCCTAAACAAAAAACATACGTTGAGATCACTAG
131 GGTTAATTCGGTTAAAACTAAAAAATGAATACCCCTAAACAAAAAACATACGCTGAGATCACTAG
775251 CTCAGTGCCATACAAATAATACTACTATACTACATGCTATCAACTAATGAGTATGCTACAAGTAC
196 CTCAGTGCCATACAAATAATACTACTATACTACATGCTATCAACTAATGAGTATGCTACAAGTAC
*
775316 ATTCATGAACATGGGAGTACGTTTAATCACACACATAATT
261 ATTCATGAACATGGGAGTACATTTAATCACACACATAATT
*
775356 TATTTAATATATATAATATATTTCATATTTAATAATTTTTGTTAATTAACCGATTTCAAACCCAA
1 TATTTAATATATATAATAGATTTCATATTTAATAATTTTTGTTAATTAACCGATTTCAAACCCAA
775421 TTAATCGTTAAATGAATATTGAAAAAAATGGTAACCGTTCCTCGATCGAACTAATTCAGTTGGTT
66 TTAATCGTTAAATGAATATTGAAAAAAATGGTAACCGTTCCTCGATCGAACTAATTCAGTTGGTT
775486 GGTTAATTCGGTTAAAACTAAAAAATGAATACCCCTAAACAAAAAACATACGCTGAGATCACTAG
131 GGTTAATTCGGTTAAAACTAAAAAATGAATACCCCTAAACAAAAAACATACGCTGAGATCACTAG
775551 CTCAGTGCCATACAAATAATACTACTATACTACATGCTATCAACTAATGAGTATGCTACAAGTAC
196 CTCAGTGCCATACAAATAATACTACTATACTACATGCTATCAACTAATGAGTATGCTACAAGTAC
775616 ATTCATGAACATGGGAGTACATTTAATCACACACATAAT
261 ATTCATGAACATGGGAGTACATTTAATCACACACATAAT
775655 GGAAGCAAGC
Statistics
Matches: 293, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
300 293 1.00
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.32
Consensus pattern (300 bp):
TATTTAATATATATAATAGATTTCATATTTAATAATTTTTGTTAATTAACCGATTTCAAACCCAA
TTAATCGTTAAATGAATATTGAAAAAAATGGTAACCGTTCCTCGATCGAACTAATTCAGTTGGTT
GGTTAATTCGGTTAAAACTAAAAAATGAATACCCCTAAACAAAAAACATACGCTGAGATCACTAG
CTCAGTGCCATACAAATAATACTACTATACTACATGCTATCAACTAATGAGTATGCTACAAGTAC
ATTCATGAACATGGGAGTACATTTAATCACACACATAATT
Found at i:776230 original size:28 final size:28
Alignment explanation
Indices: 776198--776257 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 28
776188 GTTTTACGAT
**
776198 GTATTATGGAATATGGGACAAGTTCACA
1 GTATTATAAAATATGGGACAAGTTCACA
*
776226 GTATTATAAAATCTGGGACAAGTTCACA
1 GTATTATAAAATATGGGACAAGTTCACA
776254 GTAT
1 GTAT
776258 CAATACTCCT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.30
Consensus pattern (28 bp):
GTATTATAAAATATGGGACAAGTTCACA
Found at i:783315 original size:18 final size:18
Alignment explanation
Indices: 783292--783359 Score: 127
Period size: 18 Copynumber: 3.8 Consensus size: 18
783282 TTGATCTACA
*
783292 TTCTTCTTCATTCCTCCT
1 TTCTTCTTCATTTCTCCT
783310 TTCTTCTTCATTTCTCCT
1 TTCTTCTTCATTTCTCCT
783328 TTCTTCTTCATTTCTCCT
1 TTCTTCTTCATTTCTCCT
783346 TTCTTCTTCATTTC
1 TTCTTCTTCATTTC
783360 CAGAAAGGTA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
18 49 1.00
ACGTcount: A:0.06, C:0.34, G:0.00, T:0.60
Consensus pattern (18 bp):
TTCTTCTTCATTTCTCCT
Found at i:785904 original size:21 final size:21
Alignment explanation
Indices: 785878--785957 Score: 88
Period size: 21 Copynumber: 3.7 Consensus size: 21
785868 GCCATATAGA
*
785878 ATGTCCTGAAGGACCACATAT
1 ATGTCCCGAAGGACCACATAT
* ** *
785899 ATGTCCCGAAGGACTATGTAGA
1 ATGTCCCGAAGGACCACATA-T
*
785921 ATTGTCACGAAGGACCACATAT
1 A-TGTCCCGAAGGACCACATAT
785943 ATGTCCCGAAGGACC
1 ATGTCCCGAAGGACC
785958 GCGTAGAACC
Statistics
Matches: 46, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
21 29 0.63
22 2 0.04
23 15 0.33
ACGTcount: A:0.33, C:0.24, G:0.23, T:0.21
Consensus pattern (21 bp):
ATGTCCCGAAGGACCACATAT
Found at i:786166 original size:44 final size:43
Alignment explanation
Indices: 786068--786170 Score: 109
Period size: 44 Copynumber: 2.3 Consensus size: 43
786058 CATAGACCAG
* * * *
786068 TAATCACGTAGGTTATGTCACATAGCTTATATCTCATGTTCATG
1 TAATCACATAGATCATGTCACATAGCTTATATCT-ATGTTCATA
* *
786112 TAATCGCATAGATCATGTCACATATCTTATATCT-TGTTCTCATA
1 TAATCACATAGATCATGTCACATAGCTTATATCTATG-T-TCATA
*
786156 TATTCACATAGATCA
1 TAATCACATAGATCA
786171 CATAACATAT
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
42 2 0.04
43 1 0.02
44 46 0.94
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.39
Consensus pattern (43 bp):
TAATCACATAGATCATGTCACATAGCTTATATCTATGTTCATA
Found at i:788662 original size:30 final size:30
Alignment explanation
Indices: 788626--788684 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
788616 TGATCAATCC
788626 CAAACTTACTATTTTACAAAGGATTGATCT
1 CAAACTTACTATTTTACAAAGGATTGATCT
* * *
788656 CAAACTTACTGTTTTGCAAATGATTGATC
1 CAAACTTACTATTTTACAAAGGATTGATC
788685 CCCCGTGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.37
Consensus pattern (30 bp):
CAAACTTACTATTTTACAAAGGATTGATCT
Found at i:790607 original size:20 final size:20
Alignment explanation
Indices: 790578--790618 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
790568 TATTCTAGAT
*
790578 TGCCTTTATTT-TGTGACATG
1 TGCCTGTATTTGTGT-ACATG
790598 TGCCTGTATTTGTGTACATG
1 TGCCTGTATTTGTGTACATG
790618 T
1 T
790619 TTTTCTAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 16 0.84
21 3 0.16
ACGTcount: A:0.15, C:0.15, G:0.22, T:0.49
Consensus pattern (20 bp):
TGCCTGTATTTGTGTACATG
Found at i:794643 original size:7 final size:6
Alignment explanation
Indices: 794624--794664 Score: 55
Period size: 6 Copynumber: 6.7 Consensus size: 6
794614 GTGCTGCAAC
* *
794624 AAAAAC AAAAAG AAAGAAG AAAAAT AAAAAG AAAAAG AAAA
1 AAAAAG AAAAAG AAA-AAG AAAAAG AAAAAG AAAAAG AAAA
794665 TAAAATACTC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
6 25 0.81
7 6 0.19
ACGTcount: A:0.83, C:0.02, G:0.12, T:0.02
Consensus pattern (6 bp):
AAAAAG
Found at i:794646 original size:19 final size:18
Alignment explanation
Indices: 794624--794664 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 18
794614 GTGCTGCAAC
794624 AAAAACAAAAAGAAAGAAG
1 AAAAACAAAAAGAAA-AAG
*
794643 AAAAATAAAAAGAAAAAG
1 AAAAACAAAAAGAAAAAG
794661 AAAA
1 AAAA
794665 TAAAATACTC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.83, C:0.02, G:0.12, T:0.02
Consensus pattern (18 bp):
AAAAACAAAAAGAAAAAG
Found at i:794652 original size:18 final size:17
Alignment explanation
Indices: 794625--794669 Score: 63
Period size: 19 Copynumber: 2.5 Consensus size: 17
794615 TGCTGCAACA
*
794625 AAAACAAAAAGAAAGAAG
1 AAAATAAAAAGAAA-AAG
794643 AAAAATAAAAAGAAAAAG
1 -AAAATAAAAAGAAAAAG
794661 AAAATAAAA
1 AAAATAAAA
794670 TACTCCTACA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 9 0.36
18 3 0.12
19 13 0.52
ACGTcount: A:0.82, C:0.02, G:0.11, T:0.04
Consensus pattern (17 bp):
AAAATAAAAAGAAAAAG
Found at i:800299 original size:2 final size:2
Alignment explanation
Indices: 800292--800348 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
800282 TTTCGTAAAT
800292 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
800334 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
800349 GTAGATTAAA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:801256 original size:140 final size:140
Alignment explanation
Indices: 801050--801329 Score: 560
Period size: 140 Copynumber: 2.0 Consensus size: 140
801040 ATTGCATGAT
801050 CTAGAACTATTGAATCTATAGGACATAAAACTCGACAATCATTTTTTGAACTTTTATCACACAAG
1 CTAGAACTATTGAATCTATAGGACATAAAACTCGACAATCATTTTTTGAACTTTTATCACACAAG
801115 CGAGTCCCTATTAATCCTCATTATTCCACCTTCAGCAGTTTACTTGTACCCTTTTACGTCTACAG
66 CGAGTCCCTATTAATCCTCATTATTCCACCTTCAGCAGTTTACTTGTACCCTTTTACGTCTACAG
801180 TGCTTAACAA
131 TGCTTAACAA
801190 CTAGAACTATTGAATCTATAGGACATAAAACTCGACAATCATTTTTTGAACTTTTATCACACAAG
1 CTAGAACTATTGAATCTATAGGACATAAAACTCGACAATCATTTTTTGAACTTTTATCACACAAG
801255 CGAGTCCCTATTAATCCTCATTATTCCACCTTCAGCAGTTTACTTGTACCCTTTTACGTCTACAG
66 CGAGTCCCTATTAATCCTCATTATTCCACCTTCAGCAGTTTACTTGTACCCTTTTACGTCTACAG
801320 TGCTTAACAA
131 TGCTTAACAA
801330 AATCAAATTT
Statistics
Matches: 140, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
140 140 1.00
ACGTcount: A:0.31, C:0.24, G:0.11, T:0.34
Consensus pattern (140 bp):
CTAGAACTATTGAATCTATAGGACATAAAACTCGACAATCATTTTTTGAACTTTTATCACACAAG
CGAGTCCCTATTAATCCTCATTATTCCACCTTCAGCAGTTTACTTGTACCCTTTTACGTCTACAG
TGCTTAACAA
Found at i:823977 original size:15 final size:15
Alignment explanation
Indices: 823957--823986 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
823947 ATGTTTATAA
823957 CTTCACAACGTACAT
1 CTTCACAACGTACAT
823972 CTTCACAACGTACAT
1 CTTCACAACGTACAT
823987 ACACCAGACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.33, G:0.07, T:0.27
Consensus pattern (15 bp):
CTTCACAACGTACAT
Found at i:825147 original size:6 final size:6
Alignment explanation
Indices: 825146--825202 Score: 87
Period size: 6 Copynumber: 9.5 Consensus size: 6
825136 ATGTATATGT
* * *
825146 ATGTAT ATGTAT ATGTAT ATGTAC ATGTAC ATGTAC ATGTAC ATGTAC
1 ATGTAC ATGTAC ATGTAC ATGTAC ATGTAC ATGTAC ATGTAC ATGTAC
825194 ATGTAC ATG
1 ATGTAC ATG
825203 CGGTGTAATT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 50 1.00
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.39
Consensus pattern (6 bp):
ATGTAC
Found at i:825162 original size:12 final size:12
Alignment explanation
Indices: 825136--825198 Score: 85
Period size: 12 Copynumber: 5.4 Consensus size: 12
825126 AGAACTAAAG
825136 ATGTATATGT--
1 ATGTATATGTAC
*
825146 ATGTATATGTAT
1 ATGTATATGTAC
825158 ATGTATATGTAC
1 ATGTATATGTAC
*
825170 ATGTACATGTAC
1 ATGTATATGTAC
*
825182 ATGTACATGTAC
1 ATGTATATGTAC
825194 ATGTA
1 ATGTA
825199 CATGCGGTGT
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
10 10 0.20
12 39 0.80
ACGTcount: A:0.33, C:0.08, G:0.17, T:0.41
Consensus pattern (12 bp):
ATGTATATGTAC
Found at i:825168 original size:18 final size:18
Alignment explanation
Indices: 825136--825202 Score: 84
Period size: 18 Copynumber: 3.8 Consensus size: 18
825126 AGAACTAAAG
*
825136 ATGTATATGT--ATGTAT
1 ATGTATATGTACATGTAC
*
825152 ATGTATATGTATATGTAC
1 ATGTATATGTACATGTAC
*
825170 ATGTACATGTACATGTAC
1 ATGTATATGTACATGTAC
*
825188 ATGTACATGTACATG
1 ATGTATATGTACATG
825203 CGGTGTAATT
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
16 10 0.22
18 36 0.78
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.40
Consensus pattern (18 bp):
ATGTATATGTACATGTAC
Found at i:832322 original size:16 final size:16
Alignment explanation
Indices: 832301--832332 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
832291 AATAAATAAG
832301 CGAACATAAACGAACA
1 CGAACATAAACGAACA
832317 CGAACATAAACGAACA
1 CGAACATAAACGAACA
832333 AATTTTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.25, G:0.12, T:0.06
Consensus pattern (16 bp):
CGAACATAAACGAACA
Found at i:832413 original size:10 final size:10
Alignment explanation
Indices: 832398--832472 Score: 52
Period size: 10 Copynumber: 7.7 Consensus size: 10
832388 CATTTAATAA
832398 ATAAACGAAC
1 ATAAACGAAC
832408 ATAAACGAAC
1 ATAAACGAAC
*
832418 ----ACAAAC
1 ATAAACGAAC
832424 ATAAACGAAC
1 ATAAACGAAC
** *
832434 ACGAAC-ATAA
1 ATAAACGA-AC
832444 ATGAACACGAAC
1 AT-AA-ACGAAC
832456 ATAAACGAAC
1 ATAAACGAAC
832466 ATAAACG
1 ATAAACG
832473 TTGGAGACCC
Statistics
Matches: 49, Mismatches: 8, Indels: 16
0.67 0.11 0.22
Matches are distributed among these distances:
6 5 0.10
9 1 0.02
10 34 0.69
11 3 0.06
12 5 0.10
13 1 0.02
ACGTcount: A:0.59, C:0.21, G:0.11, T:0.09
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:832426 original size:16 final size:16
Alignment explanation
Indices: 832405--832471 Score: 98
Period size: 16 Copynumber: 4.2 Consensus size: 16
832395 TAAATAAACG
832405 AACATAAACGAACACA
1 AACATAAACGAACACA
*
832421 AACATAAACGAACACG
1 AACATAAACGAACACA
* *
832437 AACATAAATGAACACG
1 AACATAAACGAACACA
*
832453 AACATAAACGAACATA
1 AACATAAACGAACACA
832469 AAC
1 AAC
832472 GTTGGAGACC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 46 1.00
ACGTcount: A:0.60, C:0.22, G:0.09, T:0.09
Consensus pattern (16 bp):
AACATAAACGAACACA
Found at i:832438 original size:32 final size:32
Alignment explanation
Indices: 832402--832466 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
832392 TAATAAATAA
832402 ACGAACATAAACGAACACAAACATAAACGAAC
1 ACGAACATAAACGAACACAAACATAAACGAAC
* *
832434 ACGAACATAAATGAACACGAACATAAACGAAC
1 ACGAACATAAACGAACACAAACATAAACGAAC
832466 A
1 A
832467 TAAACGTTGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.58, C:0.23, G:0.11, T:0.08
Consensus pattern (32 bp):
ACGAACATAAACGAACACAAACATAAACGAAC
Found at i:833762 original size:27 final size:29
Alignment explanation
Indices: 833696--833762 Score: 75
Period size: 33 Copynumber: 2.2 Consensus size: 29
833686 GAAGGGAAAG
*
833696 AGATGAAGCTCTGTCGAATCGTTGCAGTTGA
1 AGATGAAGCTCCGTCGAATCGTTGCA--TGA
833727 AGACTTGAAGCTCCGTCGAATCGTTGCA-GA
1 AGA--TGAAGCTCCGTCGAATCGTTGCATGA
833757 A-ATGAA
1 AGATGAA
833763 AATTGTGGAG
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
27 4 0.12
29 1 0.03
30 3 0.09
31 3 0.09
33 22 0.67
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (29 bp):
AGATGAAGCTCCGTCGAATCGTTGCATGA
Found at i:834048 original size:24 final size:24
Alignment explanation
Indices: 833987--834048 Score: 88
Period size: 24 Copynumber: 2.6 Consensus size: 24
833977 TATTAGGTTA
*
833987 AACATAAATGAACGCACATAAACG
1 AACATAACTGAACGCACATAAACG
* *
834011 AACATAACTAAACGCATATAAACG
1 AACATAACTGAACGCACATAAACG
*
834035 AACATAACCGAACG
1 AACATAACTGAACG
834049 TTCACGAACG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.53, C:0.23, G:0.11, T:0.13
Consensus pattern (24 bp):
AACATAACTGAACGCACATAAACG
Found at i:836211 original size:20 final size:20
Alignment explanation
Indices: 836169--836211 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
836159 TTGTTTTCAT
* *
836169 TTTTTAATTTTGAAACATCA
1 TTTTTAATTTTGAAAAATAA
836189 TTTTTATATTTT-AAAAATAA
1 TTTTTA-ATTTTGAAAAATAA
836209 TTT
1 TTT
836212 CTCATAATCC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (20 bp):
TTTTTAATTTTGAAAAATAA
Found at i:843505 original size:22 final size:22
Alignment explanation
Indices: 843475--843527 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
843465 ACTTATGTCT
*
843475 TTCGAGACACATGCATAGGTCC
1 TTCGGGACACATGCATAGGTCC
*
843497 TTTGGGACACATGCATAGGTCC
1 TTCGGGACACATGCATAGGTCC
843519 TTCGGGACA
1 TTCGGGACA
843528 TATTTAACAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.25, C:0.25, G:0.26, T:0.25
Consensus pattern (22 bp):
TTCGGGACACATGCATAGGTCC
Found at i:849139 original size:30 final size:29
Alignment explanation
Indices: 849070--849141 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 29
849060 TAAAAGTATG
*
849070 CCCTTAATAATAAGTATTGAAAAATTAGA
1 CCCTTAATAACAAGTATTGAAAAATTAGA
* * *
849099 CACATGATAACAAGTATTGAAAAAATT-GAA
1 CCCTTAATAACAAGTATTG-AAAAATTAG-A
849129 CCCTTAATAACAA
1 CCCTTAATAACAA
849142 ATGTTAAAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
29 16 0.47
30 18 0.53
ACGTcount: A:0.50, C:0.14, G:0.10, T:0.26
Consensus pattern (29 bp):
CCCTTAATAACAAGTATTGAAAAATTAGA
Found at i:853317 original size:2 final size:2
Alignment explanation
Indices: 853310--853352 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
853300 ATAAAATACC
853310 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
853352 T
1 T
853353 TAGGAAGTGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:853692 original size:36 final size:36
Alignment explanation
Indices: 853652--853972 Score: 446
Period size: 36 Copynumber: 8.9 Consensus size: 36
853642 CTTAAATCAG
* ** *
853652 AAGTGCTGATGCTTCATTCCGTTCGATTTGAATCGA
1 AAGTGCCGATGCTTCCCTCCGTTCGACTTGAATCGA
* *
853688 AAGTGTCGATGCTTCCCTCCGTTCGATTTGAATCGA
1 AAGTGCCGATGCTTCCCTCCGTTCGACTTGAATCGA
*
853724 AAGTGCCGATGCTTCCCTCCGTTCGACTTGAATCGG
1 AAGTGCCGATGCTTCCCTCCGTTCGACTTGAATCGA
* * *
853760 AAGTGTCGATGCTTCCTTCCGTTC-ACTTGAATCGG
1 AAGTGCCGATGCTTCCCTCCGTTCGACTTGAATCGA
* ** *
853795 AAGTGTCGATGCTTCATTCCGTTCGATTTGAATCGA
1 AAGTGCCGATGCTTCCCTCCGTTCGACTTGAATCGA
** * *
853831 AAGTGCCGATGCTTCATTCCGTTCGATTTGAATCGG
1 AAGTGCCGATGCTTCCCTCCGTTCGACTTGAATCGA
853867 AAGTGCCGATGCTTCCCTCCGTTCGACTTGAATCGA
1 AAGTGCCGATGCTTCCCTCCGTTCGACTTGAATCGA
853903 AAGTGCCGATGCTTCCCTCCGTTCGACTTGAATCGA
1 AAGTGCCGATGCTTCCCTCCGTTCGACTTGAATCGA
* * *
853939 AAATACCGATACTTCCCTCCGTTCGACTTGAATC
1 AAGTGCCGATGCTTCCCTCCGTTCGACTTGAATC
853973 TATGCAAACT
Statistics
Matches: 263, Mismatches: 21, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
35 34 0.13
36 229 0.87
ACGTcount: A:0.20, C:0.26, G:0.22, T:0.32
Consensus pattern (36 bp):
AAGTGCCGATGCTTCCCTCCGTTCGACTTGAATCGA
Found at i:853898 original size:143 final size:143
Alignment explanation
Indices: 853640--853937 Score: 490
Period size: 143 Copynumber: 2.1 Consensus size: 143
853630 AAAAGATGAA
* * * *
853640 CACTTAAATCAGAAGTGCTGATGCTTCATTCCGTTCGATTTGAATCGAAAGTGTCGATGCTTCCC
1 CACTTGAATCGGAAGTGCTGATGCTTCATTCCGTTCGATTTGAATCGAAAGTGCCGATGCTTCAC
* *
853705 TCCGTTCGATTTGAATCGAAAGTGCCGATGCTTCCCTCCGTTCGACTTGAATCGGAAGTGTCGAT
66 TCCGTTCGATTTGAATCGAAAGTGCCGATGCTTCCCTCCGTTCGACTTGAATCGAAAGTGCCGAT
*
853770 GCTTCCTTCCGTT
131 GCTTCCCTCCGTT
853783 CACTTGAATCGGAAGTG-TCGATGCTTCATTCCGTTCGATTTGAATCGAAAGTGCCGATGCTTCA
1 CACTTGAATCGGAAGTGCT-GATGCTTCATTCCGTTCGATTTGAATCGAAAGTGCCGATGCTTCA
* *
853847 TTCCGTTCGATTTGAATCGGAAGTGCCGATGCTTCCCTCCGTTCGACTTGAATCGAAAGTGCCGA
65 CTCCGTTCGATTTGAATCGAAAGTGCCGATGCTTCCCTCCGTTCGACTTGAATCGAAAGTGCCGA
853912 TGCTTCCCTCCGTT
130 TGCTTCCCTCCGTT
853926 CGACTTGAATCG
1 C-ACTTGAATCG
853938 AAAATACCGA
Statistics
Matches: 144, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
142 1 0.01
143 133 0.92
144 10 0.07
ACGTcount: A:0.20, C:0.26, G:0.22, T:0.32
Consensus pattern (143 bp):
CACTTGAATCGGAAGTGCTGATGCTTCATTCCGTTCGATTTGAATCGAAAGTGCCGATGCTTCAC
TCCGTTCGATTTGAATCGAAAGTGCCGATGCTTCCCTCCGTTCGACTTGAATCGAAAGTGCCGAT
GCTTCCCTCCGTT
Found at i:857058 original size:122 final size:122
Alignment explanation
Indices: 856841--857085 Score: 490
Period size: 122 Copynumber: 2.0 Consensus size: 122
856831 AAGTTGAAAT
856841 CTCTGCTTTCTTGGCAAGGAGGAAGCCCTCTCTAGAGAAGGGGTACAGCAATCTGCCACACCTTG
1 CTCTGCTTTCTTGGCAAGGAGGAAGCCCTCTCTAGAGAAGGGGTACAGCAATCTGCCACACCTTG
856906 ATATCACAGTCCAAGCTTCCGCTGTAAATAACATACCATGTATTGGAACGGTCGCAA
66 ATATCACAGTCCAAGCTTCCGCTGTAAATAACATACCATGTATTGGAACGGTCGCAA
856963 CTCTGCTTTCTTGGCAAGGAGGAAGCCCTCTCTAGAGAAGGGGTACAGCAATCTGCCACACCTTG
1 CTCTGCTTTCTTGGCAAGGAGGAAGCCCTCTCTAGAGAAGGGGTACAGCAATCTGCCACACCTTG
857028 ATATCACAGTCCAAGCTTCCGCTGTAAATAACATACCATGTATTGGAACGGTCGCAA
66 ATATCACAGTCCAAGCTTCCGCTGTAAATAACATACCATGTATTGGAACGGTCGCAA
857085 C
1 C
857086 GATCGACCGC
Statistics
Matches: 123, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
122 123 1.00
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.24
Consensus pattern (122 bp):
CTCTGCTTTCTTGGCAAGGAGGAAGCCCTCTCTAGAGAAGGGGTACAGCAATCTGCCACACCTTG
ATATCACAGTCCAAGCTTCCGCTGTAAATAACATACCATGTATTGGAACGGTCGCAA
Found at i:859565 original size:23 final size:24
Alignment explanation
Indices: 859506--859569 Score: 71
Period size: 23 Copynumber: 2.8 Consensus size: 24
859496 CGAACGAATG
*
859506 TAAACGAATAT-AAATGAACACAA
1 TAAACGAACATAAAATGAACACAA
* *
859529 TAAACGATCGTAAAAT-AACACAA
1 TAAACGAACATAAAATGAACACAA
*
859552 TAAACTAACAT-AAATGAA
1 TAAACGAACATAAAATGAA
859570 AATAGATTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
22 4 0.12
23 25 0.76
24 4 0.12
ACGTcount: A:0.59, C:0.14, G:0.08, T:0.19
Consensus pattern (24 bp):
TAAACGAACATAAAATGAACACAA
Found at i:859765 original size:24 final size:24
Alignment explanation
Indices: 859733--859780 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
859723 AGATTGAGCT
*
859733 AAACATAAATGAACGCACATAAAC
1 AAACATAAATGAACGAACATAAAC
859757 AAACATAAATGAACGAACATAAAC
1 AAACATAAATGAACGAACATAAAC
859781 GAACTAACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.60, C:0.19, G:0.08, T:0.12
Consensus pattern (24 bp):
AAACATAAATGAACGAACATAAAC
Found at i:859789 original size:14 final size:14
Alignment explanation
Indices: 859734--859791 Score: 52
Period size: 14 Copynumber: 4.4 Consensus size: 14
859724 GATTGAGCTA
*
859734 AACATAAATGAACG
1 AACATAAACGAACG
*
859748 CACATAAAC--A--
1 AACATAAACGAACG
*
859758 AACATAAATGAACG
1 AACATAAACGAACG
*
859772 AACATAAACGAACT
1 AACATAAACGAACG
859786 AACATA
1 AACATA
859792 TTACCAAACG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
10 7 0.21
12 2 0.06
14 25 0.74
ACGTcount: A:0.59, C:0.19, G:0.09, T:0.14
Consensus pattern (14 bp):
AACATAAACGAACG
Found at i:862125 original size:13 final size:13
Alignment explanation
Indices: 862107--862155 Score: 80
Period size: 13 Copynumber: 3.8 Consensus size: 13
862097 TGCGTCATAA
862107 ATTTATGACGCAC
1 ATTTATGACGCAC
**
862120 ATTTATGATACAC
1 ATTTATGACGCAC
862133 ATTTATGACGCAC
1 ATTTATGACGCAC
862146 ATTTATGACG
1 ATTTATGACG
862156 TTTATTGAGC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 32 1.00
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (13 bp):
ATTTATGACGCAC
Found at i:867892 original size:24 final size:24
Alignment explanation
Indices: 867858--867905 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
867848 TTAAAAAACG
*
867858 GTTTTTAAAAACGTACATAATATA
1 GTTTTTAAAAACATACATAATATA
* *
867882 GTTTTTGAAAACATATATAATATA
1 GTTTTTAAAAACATACATAATATA
867906 TATAATCTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.40
Consensus pattern (24 bp):
GTTTTTAAAAACATACATAATATA
Found at i:867994 original size:15 final size:14
Alignment explanation
Indices: 867970--868025 Score: 55
Period size: 15 Copynumber: 4.0 Consensus size: 14
867960 TTTTATTTTC
867970 CATTTT-TTATATTT
1 CATTTTATT-TATTT
*
867984 CTTTTTATTATATTAT
1 CATTTTATT-TATT-T
868000 -ATTTTATTTA-TT
1 CATTTTATTTATTT
868012 CATTTTATTTATTT
1 CATTTTATTTATTT
868026 AATTATTTGA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
12 1 0.03
13 11 0.31
14 9 0.25
15 14 0.39
16 1 0.03
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.71
Consensus pattern (14 bp):
CATTTTATTTATTT
Found at i:868019 original size:20 final size:20
Alignment explanation
Indices: 867974--868019 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
867964 ATTTTCCATT
*
867974 TTTTATATTTCTTTTTATTA
1 TTTTATATTTCTATTTATTA
*
867994 TATTATATTT-TATTTATTCA
1 TTTTATATTTCTATTTATT-A
868014 TTTTAT
1 TTTTAT
868020 TTATTTAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTTATATTTCTATTTATTA
Found at i:872966 original size:24 final size:24
Alignment explanation
Indices: 872939--873012 Score: 103
Period size: 24 Copynumber: 3.1 Consensus size: 24
872929 TCAAGGAGAC
* *
872939 TCATCTGTTGCAAAAGCGCAAGCT
1 TCATCTGCTGCAAAAGCACAAGCT
*
872963 TCATCTGCTGCAAAAACACAAGCT
1 TCATCTGCTGCAAAAGCACAAGCT
* *
872987 TCATCGGCTGTAAAAGCACAAGCT
1 TCATCTGCTGCAAAAGCACAAGCT
873011 TC
1 TC
873013 TGTAACTAAC
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (24 bp):
TCATCTGCTGCAAAAGCACAAGCT
Found at i:881064 original size:37 final size:35
Alignment explanation
Indices: 880950--881073 Score: 124
Period size: 37 Copynumber: 3.4 Consensus size: 35
880940 TTTCGAAAGA
* *
880950 ATATAATATTTAATTTAAAAAAATGGTTTTGAAAAC
1 ATATAATATAT-ATTTAAAAAAAAGGTTTTGAAAAC
* ** *
880986 ATATAATATACATTTAAAAAAAACAATTTTTTAAAAC
1 ATATAATATATATTT-AAAAAAA-AGGTTTTGAAAAC
* *
881023 ATATAATATATAGTTAAAAAAAGGGTTTTGAAAAC
1 ATATAATATATATTTAAAAAAAAGGTTTTGAAAAC
881058 GTATATAATATA-ATTT
1 --ATATAATATATATTT
881074 TTGAAAACAT
Statistics
Matches: 71, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
35 13 0.18
36 26 0.37
37 32 0.45
ACGTcount: A:0.52, C:0.04, G:0.07, T:0.37
Consensus pattern (35 bp):
ATATAATATATATTTAAAAAAAAGGTTTTGAAAAC
Found at i:881089 original size:37 final size:36
Alignment explanation
Indices: 881054--881142 Score: 85
Period size: 38 Copynumber: 2.4 Consensus size: 36
881044 AGGGTTTTGA
881054 AAACGTATATAATATA-A-TTTTTGAAAACA-TATTTTG
1 AAAC-TATATAATATATAGTTTTT-AAAACAGT-TTTTG
* *
881090 TAACTATATATATATATAGTTTTTAAAATAGTTTTTGG
1 AAACTATATA-ATATATAGTTTTTAAAACAGTTTTT-G
881128 AAACATATATAATAT
1 AAAC-TATATAATAT
881143 TTGAAAACAT
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
35 6 0.14
36 8 0.18
37 10 0.23
38 14 0.32
39 6 0.14
ACGTcount: A:0.44, C:0.04, G:0.08, T:0.44
Consensus pattern (36 bp):
AAACTATATAATATATAGTTTTTAAAACAGTTTTTG
Found at i:883669 original size:18 final size:20
Alignment explanation
Indices: 883629--883675 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 20
883619 AATATATTAT
*
883629 TATTTTAATATAAGAAATTA
1 TATTTTAATATAAGAAATGA
*
883649 TATTTTAAT-TTA-AAATGA
1 TATTTTAATATAAGAAATGA
883667 TATTATTAA
1 TATT-TTAA
883676 AATATAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 9 0.38
19 6 0.25
20 9 0.38
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (20 bp):
TATTTTAATATAAGAAATGA
Found at i:888370 original size:17 final size:19
Alignment explanation
Indices: 888338--888372 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
888328 GTTATATATT
888338 TGAAATAGATTAATGATAA
1 TGAAATAGATTAATGATAA
888357 TGAAAT-GA-TAATGATA
1 TGAAATAGATTAATGATA
888373 GTGATAAGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 2 0.12
19 6 0.38
ACGTcount: A:0.51, C:0.00, G:0.17, T:0.31
Consensus pattern (19 bp):
TGAAATAGATTAATGATAA
Found at i:892927 original size:11 final size:11
Alignment explanation
Indices: 892911--892952 Score: 68
Period size: 11 Copynumber: 3.8 Consensus size: 11
892901 GAAATGGATT
892911 AATGATAATGA
1 AATGATAATGA
892922 AATGATAATGA
1 AATGATAATGA
892933 TAAT-ATAATGA
1 -AATGATAATGA
892944 AATGATAAT
1 AATGATAAT
892953 ATATGTGCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
10 3 0.10
11 23 0.79
12 3 0.10
ACGTcount: A:0.55, C:0.00, G:0.14, T:0.31
Consensus pattern (11 bp):
AATGATAATGA
Found at i:892940 original size:5 final size:6
Alignment explanation
Indices: 892910--892952 Score: 65
Period size: 6 Copynumber: 7.7 Consensus size: 6
892900 TGAAATGGAT
892910 TAATGA TAATGA -AATGA TAATGA TAAT-A TAATGA -AATGA TAAT
1 TAATGA TAATGA TAATGA TAATGA TAATGA TAATGA TAATGA TAAT
892953 ATATGTGCAT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
5 15 0.44
6 19 0.56
ACGTcount: A:0.53, C:0.00, G:0.14, T:0.33
Consensus pattern (6 bp):
TAATGA
Found at i:892943 original size:22 final size:23
Alignment explanation
Indices: 892910--892952 Score: 79
Period size: 22 Copynumber: 1.9 Consensus size: 23
892900 TGAAATGGAT
892910 TAATGATAATGAAATGATAATGA
1 TAATGATAATGAAATGATAATGA
892933 TAAT-ATAATGAAATGATAAT
1 TAATGATAATGAAATGATAAT
892953 ATATGTGCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.53, C:0.00, G:0.14, T:0.33
Consensus pattern (23 bp):
TAATGATAATGAAATGATAATGA
Found at i:893296 original size:25 final size:25
Alignment explanation
Indices: 893267--893324 Score: 116
Period size: 25 Copynumber: 2.3 Consensus size: 25
893257 TGATCGGTTT
893267 TGTAAAATCATATGATTATATTTAA
1 TGTAAAATCATATGATTATATTTAA
893292 TGTAAAATCATATGATTATATTTAA
1 TGTAAAATCATATGATTATATTTAA
893317 TGTAAAAT
1 TGTAAAAT
893325 ATTTAGTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.45, C:0.03, G:0.09, T:0.43
Consensus pattern (25 bp):
TGTAAAATCATATGATTATATTTAA
Found at i:893360 original size:23 final size:24
Alignment explanation
Indices: 893282--893378 Score: 81
Period size: 25 Copynumber: 3.9 Consensus size: 24
893272 AATCATATGA
* *
893282 TTATATTTAATGTAAAATCATAT-G
1 TTATATTGAATGTAAAAT-ATTTAG
*
893306 ATTATATTTAATGTAAAATATTTAG
1 -TTATATTGAATGTAAAATATTTAG
* * *
893331 TTTTATTGAATGT-GAATTTTTAG
1 TTATATTGAATGTAAAATATTTAG
893354 TTATATTGCAAATGTAAAATGATTT
1 TTATATTG--AATGTAAAAT-ATTT
893379 GAAAAGTTAA
Statistics
Matches: 59, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
23 15 0.25
24 14 0.24
25 24 0.41
26 3 0.05
27 3 0.05
ACGTcount: A:0.38, C:0.02, G:0.11, T:0.48
Consensus pattern (24 bp):
TTATATTGAATGTAAAATATTTAG
Found at i:896851 original size:14 final size:14
Alignment explanation
Indices: 896832--896859 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
896822 CAACAGTCGG
896832 TCAATGGTTAACGA
1 TCAATGGTTAACGA
896846 TCAATGGTTAACGA
1 TCAATGGTTAACGA
896860 CTGACAGGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (14 bp):
TCAATGGTTAACGA
Found at i:899242 original size:27 final size:25
Alignment explanation
Indices: 899187--899242 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
899177 TATTCTTTAG
* *
899187 AAATATATTAATTTTATTTTAAAAA
1 AAATATATTAATTTAAATTTAAAAA
*
899212 AAATATATTTATATTAAATTTATAAAA
1 AAATATATTAAT-TTAAATTTA-AAAA
899239 AAAT
1 AAAT
899243 CAAATCATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 11 0.42
26 7 0.27
27 8 0.31
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (25 bp):
AAATATATTAATTTAAATTTAAAAA
Found at i:914188 original size:30 final size:29
Alignment explanation
Indices: 914152--914208 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 29
914142 GTTACTATGT
914152 GTATATGCATCTCAATTAAAGCTCAAATGA
1 GTATATGCATCTCAATT-AAGCTCAAATGA
*
914182 GTATATGCATCTCAATTCAGCTCAAAT
1 GTATATGCATCTCAATTAAGCTCAAAT
914209 CAACTCACTA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 9 0.35
30 17 0.65
ACGTcount: A:0.37, C:0.19, G:0.12, T:0.32
Consensus pattern (29 bp):
GTATATGCATCTCAATTAAGCTCAAATGA
Found at i:920038 original size:11 final size:11
Alignment explanation
Indices: 920022--920046 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
920012 ACAGGGTGTA
920022 GTGGGGATTAG
1 GTGGGGATTAG
920033 GTGGGGATTAG
1 GTGGGGATTAG
920044 GTG
1 GTG
920047 AGGTTTAGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.00, G:0.56, T:0.28
Consensus pattern (11 bp):
GTGGGGATTAG
Found at i:921416 original size:15 final size:17
Alignment explanation
Indices: 921396--921427 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
921386 TAGGAAAAAT
921396 AAAAATA-AAA-AGAAA
1 AAAAATAGAAATAGAAA
921411 AAAAATAGAAATAGAAA
1 AAAAATAGAAATAGAAA
921428 TAGAAATTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.81, C:0.00, G:0.09, T:0.09
Consensus pattern (17 bp):
AAAAATAGAAATAGAAA
Found at i:921416 original size:21 final size:23
Alignment explanation
Indices: 921390--921433 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
921380 AAAATCTAGG
921390 AAAAATAAAAATA-AAA-AGAAA
1 AAAAATAAAAATAGAAATAGAAA
*
921411 AAAAATAGAAATAGAAATAGAAA
1 AAAAATAAAAATAGAAATAGAAA
921434 TTGAAAAAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 12 0.60
22 3 0.15
23 5 0.25
ACGTcount: A:0.80, C:0.00, G:0.09, T:0.11
Consensus pattern (23 bp):
AAAAATAAAAATAGAAATAGAAA
Found at i:921448 original size:7 final size:7
Alignment explanation
Indices: 921436--921525 Score: 180
Period size: 7 Copynumber: 12.9 Consensus size: 7
921426 AATAGAAATT
921436 GAAAAAG
1 GAAAAAG
921443 GAAAAAG
1 GAAAAAG
921450 GAAAAAG
1 GAAAAAG
921457 GAAAAAG
1 GAAAAAG
921464 GAAAAAG
1 GAAAAAG
921471 GAAAAAG
1 GAAAAAG
921478 GAAAAAG
1 GAAAAAG
921485 GAAAAAG
1 GAAAAAG
921492 GAAAAAG
1 GAAAAAG
921499 GAAAAAG
1 GAAAAAG
921506 GAAAAAG
1 GAAAAAG
921513 GAAAAAG
1 GAAAAAG
921520 GAAAAA
1 GAAAAA
921526 TTGGGTTGCC
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 83 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (7 bp):
GAAAAAG
Found at i:942465 original size:32 final size:32
Alignment explanation
Indices: 942429--942499 Score: 124
Period size: 32 Copynumber: 2.2 Consensus size: 32
942419 CGCCCATACT
* *
942429 TCATCAACACCATTTTCCATTGAAGGCCACCA
1 TCATCAACAACATCTTCCATTGAAGGCCACCA
942461 TCATCAACAACATCTTCCATTGAAGGCCACCA
1 TCATCAACAACATCTTCCATTGAAGGCCACCA
942493 TCATCAA
1 TCATCAA
942500 TGACAACTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.34, C:0.34, G:0.08, T:0.24
Consensus pattern (32 bp):
TCATCAACAACATCTTCCATTGAAGGCCACCA
Found at i:942506 original size:35 final size:33
Alignment explanation
Indices: 942429--942513 Score: 111
Period size: 32 Copynumber: 2.5 Consensus size: 33
942419 CGCCCATACT
* *
942429 TCATCAAC-ACCATTTTCCATTGAAGGCCACCA
1 TCATCAACAACTATCTTCCATTGAAGGCCACCA
942461 TCATCAACAAC-ATCTTCCATTGAAGGCCACCA
1 TCATCAACAACTATCTTCCATTGAAGGCCACCA
942493 TCATCAATGACAACTATCTTC
1 TCATC-A--ACAACTATCTTC
942514 TGCAACCAAC
Statistics
Matches: 47, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
32 33 0.70
33 3 0.06
35 5 0.11
36 6 0.13
ACGTcount: A:0.33, C:0.33, G:0.08, T:0.26
Consensus pattern (33 bp):
TCATCAACAACTATCTTCCATTGAAGGCCACCA
Found at i:946339 original size:147 final size:147
Alignment explanation
Indices: 946068--946352 Score: 367
Period size: 147 Copynumber: 1.9 Consensus size: 147
946058 GCTGAAGACA
* *
946068 TTGTGCATCTTCATTATGGTTTAAATGTAGAGAACTATGCTTGTTCTCTTTGTGGCTTACCTTTG
1 TTGTGCATCTTCATTATGGTTTAAATGTAGAGAACTATGCATGTTCTCTTTGTGACTTACCTTTG
* * ** * * * * *
946133 GAGGACTTTCAGTGTCTTCATTGTCACTTACTTCTCGAGGAGTTTCTGTGTTTTTATTCTCACTT
66 GAGGACTTTAAGTGGCTTCATTGTCACCGACTTCTAGAGGAGATTCAGTGTTCTCATTCTCACTT
946198 ATCCCTTGTTGAGGATC
131 ATCCCTTGTTGAGGATC
* * * * *
946215 TTGTGCATCTTCATTATGGTTTATATGTCGAGGACTATGCATGTTCTCTTCT-TGATTTCCCTTT
1 TTGTGCATCTTCATTATGGTTTAAATGTAGAGAACTATGCATGTTCTCTT-TGTGACTTACCTTT
* **
946279 TGAGGACTTTAAGTGGCTTCATTGTCACCGACCTT-TAGAGGAGATTCAGTGTTCTCATTCTGGC
65 GGAGGACTTTAAGTGGCTTCATTGTCACCGA-CTTCTAGAGGAGATTCAGTGTTCTCATTCTCAC
946343 TTATCCCTTG
129 TTATCCCTTG
946353 GGGCCTTTGC
Statistics
Matches: 117, Mismatches: 19, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
147 113 0.97
148 4 0.03
ACGTcount: A:0.17, C:0.19, G:0.20, T:0.44
Consensus pattern (147 bp):
TTGTGCATCTTCATTATGGTTTAAATGTAGAGAACTATGCATGTTCTCTTTGTGACTTACCTTTG
GAGGACTTTAAGTGGCTTCATTGTCACCGACTTCTAGAGGAGATTCAGTGTTCTCATTCTCACTT
ATCCCTTGTTGAGGATC
Found at i:950053 original size:63 final size:63
Alignment explanation
Indices: 949975--950188 Score: 167
Period size: 63 Copynumber: 3.4 Consensus size: 63
949965 TAATAATATC
** *
949975 TTTTAATTTGAAATATTTTAAA-GATATAAACTCAT-TTTACTATTCAAACTTAAATAAATATTA
1 TTTTAATTTGAAATATTCAAAAGGATAT-AA-TCATCTTTAATATTCAAACTTAAATAAATATTA
* * *
950038 TTTTAATTTGAAATATTCAAAAGGATATAATTATCTTTAATATTCAAAGTTAAATATGTAACAAA
1 TTTTAATTTGAAATATTCAAAAGGATATAATCATCTTTAATATTCAAACTT-AA-A--TAA-ATA
*
950103 TATC
61 T-TA
* * * *
950107 TTTTAATTTGACATATTC-AAA-GA-ATAATTATCCTACTAATATTCAAA-TT-AA-AAATA-TC
1 TTTTAATTTGAAATATTCAAAAGGATATAATCAT-CT-TTAATATTCAAACTTAAATAAATATTA
*
950165 TTTTAATTTGCAATATTCAAAAGG
1 TTTTAATTTGAAATATTCAAAAGG
950189 TACATGAATT
Statistics
Matches: 127, Mismatches: 12, Indels: 27
0.77 0.07 0.16
Matches are distributed among these distances:
58 18 0.14
59 3 0.02
60 3 0.02
61 2 0.02
62 3 0.02
63 36 0.28
64 8 0.06
65 2 0.02
66 8 0.06
67 9 0.07
68 17 0.13
69 18 0.14
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.42
Consensus pattern (63 bp):
TTTTAATTTGAAATATTCAAAAGGATATAATCATCTTTAATATTCAAACTTAAATAAATATTA
Found at i:955148 original size:16 final size:16
Alignment explanation
Indices: 955099--955149 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
955089 AGGTTGAACA
*
955099 AGTTCTTCTCATTGTG
1 AGTTCTTCTCATTATG
* *
955115 AACTTCTTCTTCA-GATG
1 -AGTTCTTC-TCATTATG
955132 AGTTCTTCTCATTATG
1 AGTTCTTCTCATTATG
955148 AG
1 AG
955150 CCCCTTCTGG
Statistics
Matches: 27, Mismatches: 5, Indels: 5
0.73 0.14 0.14
Matches are distributed among these distances:
15 3 0.11
16 12 0.44
17 9 0.33
18 3 0.11
ACGTcount: A:0.20, C:0.20, G:0.16, T:0.45
Consensus pattern (16 bp):
AGTTCTTCTCATTATG
Found at i:955302 original size:73 final size:72
Alignment explanation
Indices: 955184--955333 Score: 228
Period size: 73 Copynumber: 2.1 Consensus size: 72
955174 CAAGTGATGG
* * * *
955184 AAATTTTTATTTCTAGTGAACTGTCTCAAGCGAGACGAATCTTGTTTTAAGAAAAACAATCTCAA
1 AAATTGTTATTTCGAGTGAACTGTCTCAAACGAGACAAATCTTGTTTTAAGAAAAACAATCTCAA
955249 GTGAGAT
66 GTGAGAT
* * *
955256 AAATTGTTGTTTCGAGTGAAACTGTCTCAAACGAGACAAATTTTGTTTTAAGTAAAACAATCTCA
1 AAATTGTTATTTCGAGTG-AACTGTCTCAAACGAGACAAATCTTGTTTTAAGAAAAACAATCTCA
955321 AGTGAGAT
65 AGTGAGAT
955329 AAATT
1 AAATT
955334 TCTATTTGAA
Statistics
Matches: 70, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
72 15 0.21
73 55 0.79
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (72 bp):
AAATTGTTATTTCGAGTGAACTGTCTCAAACGAGACAAATCTTGTTTTAAGAAAAACAATCTCAA
GTGAGAT
Found at i:955333 original size:36 final size:36
Alignment explanation
Indices: 955207--955334 Score: 130
Period size: 36 Copynumber: 3.5 Consensus size: 36
955197 TAGTGAACTG
* * *
955207 TCTCAAGCGAGACGAATCTTGTTTTAAGAAAAACAA
1 TCTCAAGCGAGACAAATTTTGTTTTAAGTAAAACAA
* * ** * **
955243 TCTCAAGTGAGATAAATTGTTGTTTCGAGTGAAACTG
1 TCTCAAGCGAGACAAATT-TTGTTTTAAGTAAAACAA
*
955280 TCTCAAACGAGACAAATTTTGTTTTAAGTAAAACAA
1 TCTCAAGCGAGACAAATTTTGTTTTAAGTAAAACAA
* *
955316 TCTCAAGTGAGATAAATTT
1 TCTCAAGCGAGACAAATTT
955335 CTATTTGAAA
Statistics
Matches: 70, Mismatches: 21, Indels: 2
0.75 0.23 0.02
Matches are distributed among these distances:
36 43 0.61
37 27 0.39
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.31
Consensus pattern (36 bp):
TCTCAAGCGAGACAAATTTTGTTTTAAGTAAAACAA
Found at i:959245 original size:8 final size:8
Alignment explanation
Indices: 959217--959247 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
959207 ATTTCTCATC
959217 TTTTCTTT
1 TTTTCTTT
959225 TTTTCCTTT
1 TTTT-CTTT
959234 TTTTCTTT
1 TTTTCTTT
959242 TTTTCT
1 TTTTCT
959248 GATGAATGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 14 0.64
9 8 0.36
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (8 bp):
TTTTCTTT
Found at i:975818 original size:13 final size:13
Alignment explanation
Indices: 975786--975826 Score: 55
Period size: 13 Copynumber: 3.0 Consensus size: 13
975776 TGTGAGTGAC
*
975786 CAAAATATAAATAAA
1 CAAAAT-TAAA-ATA
975801 CAAAATTAAAATA
1 CAAAATTAAAATA
975814 CAAAATTAAAATA
1 CAAAATTAAAATA
975827 TATAAAAACA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 15 0.60
14 4 0.16
15 6 0.24
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.22
Consensus pattern (13 bp):
CAAAATTAAAATA
Found at i:976912 original size:3 final size:3
Alignment explanation
Indices: 976894--976942 Score: 66
Period size: 3 Copynumber: 16.7 Consensus size: 3
976884 TTGTAACAAT
*
976894 TAA TTA TAA T-A TAA TAA TAA TAA TATA TAA TAA TAA TAA TAA T-A
1 TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA
976938 TAA TA
1 TAA TA
976943 CGTATAACGA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
2 4 0.10
3 34 0.83
4 3 0.07
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:988997 original size:13 final size:13
Alignment explanation
Indices: 988976--989007 Score: 55
Period size: 13 Copynumber: 2.4 Consensus size: 13
988966 GACCACAATA
988976 TAAATAAACAAAAT
1 TAAA-AAACAAAAT
988990 TAAAAAACAAAAT
1 TAAAAAACAAAAT
989003 TAAAA
1 TAAAA
989008 TGTATAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 14 0.78
14 4 0.22
ACGTcount: A:0.75, C:0.06, G:0.00, T:0.19
Consensus pattern (13 bp):
TAAAAAACAAAAT
Found at i:990592 original size:20 final size:21
Alignment explanation
Indices: 990567--990659 Score: 100
Period size: 21 Copynumber: 4.5 Consensus size: 21
990557 TTTTCCCAAT
*
990567 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
990587 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
990608 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
990628 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
990649 TCGCAATGCGA
1 TCGCAATGCGA
990660 TACTAACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:990612 original size:41 final size:41
Alignment explanation
Indices: 990567--990659 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
990557 TTTTCCCAAT
990567 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
990608 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
990649 TCGCAATGCGA
1 TCGCAATGCGA
990660 TACTAACTAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:990672 original size:41 final size:41
Alignment explanation
Indices: 990586--990720 Score: 141
Period size: 41 Copynumber: 3.3 Consensus size: 41
990576 GAATAAGTAA
*
990586 ATCGCAACGCGAATTGGGAAAATCGCAATGCGA-A-TAAGT
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTAACT
990625 AAATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTAACT
1 --ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTAACT
* * ** * * *
990668 ATCGCAATGCGATAAT-ACAAAATCGCAACGAGATACTTACT
1 ATCGCAACGCGA-ATTGGGAAAATCGCAATGCGATACTAACT
*
990709 TTCGCAACGCGA
1 ATCGCAACGCGA
990721 TACTGACTTT
Statistics
Matches: 81, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
41 74 0.91
42 3 0.04
43 4 0.05
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.19
Consensus pattern (41 bp):
ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTAACT
Found at i:990673 original size:20 final size:20
Alignment explanation
Indices: 990648--990762 Score: 104
Period size: 20 Copynumber: 5.7 Consensus size: 20
990638 AATTGGGAAA
*
990648 ATCGCAATGCGATACTAACT
1 ATCGCAACGCGATACTAACT
* * **
990668 ATCGCAATGCGATAATACAAA
1 ATCGCAACGCGATACTA-ACT
* *
990689 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTAACT
* *
990709 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTAACT
* * *
990729 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTAACT
*
990749 TTCGCAACGCGATA
1 ATCGCAACGCGATA
990763 ATACATAATC
Statistics
Matches: 80, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
20 66 0.82
21 14 0.17
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATACTAACT
Found at i:990721 original size:41 final size:41
Alignment explanation
Indices: 990645--990782 Score: 145
Period size: 41 Copynumber: 3.4 Consensus size: 41
990635 GCGAATTGGG
* * *
990645 AAAATCGCAATGCGATACTAACTATCGCAATGCGATAATAC
1 AAAATCGCAACGCGATACTAACTTTCGCAACGCGATAATAC
* * *
990686 AAAATCGCAACGAGATACTTACTTTCGCAACGCGATACTGAC
1 AAAATCGCAACGCGATACTAACTTTCGCAACGCGATAAT-AC
** * *
990728 --TTTCGCAACGCGATTCTGACTTTCGCAACGCGATAATAC
1 AAAATCGCAACGCGATACTAACTTTCGCAACGCGATAATAC
* *
990767 ATAATCGCAATGCGAT
1 AAAATCGCAACGCGAT
990783 TTTTAAAGCG
Statistics
Matches: 79, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
39 2 0.03
40 31 0.39
41 44 0.56
42 2 0.03
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.24
Consensus pattern (41 bp):
AAAATCGCAACGCGATACTAACTTTCGCAACGCGATAATAC
Found at i:990978 original size:22 final size:22
Alignment explanation
Indices: 990950--990993 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
990940 CACTCTCTCA
990950 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
990972 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
990994 TATCTCCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:991282 original size:20 final size:20
Alignment explanation
Indices: 991257--991294 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
991247 CGATTCTCTC
991257 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
**
991277 GTTGCGATTTTCATTTTC
1 GTTGCGATAGTCATTTTC
991295 AGAAACTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.16, G:0.21, T:0.50
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGT
Found at i:991485 original size:25 final size:24
Alignment explanation
Indices: 991431--991485 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
991421 TGTTTATTAT
* *
991431 TGTTTTTGGTATATCTTCATAGTG
1 TGTTTTTGGTATATCTACATAGTA
*
991455 TAGTTTTTGGTATATCTAACTTAGTA
1 T-GTTTTTGGTATATCT-ACATAGTA
991481 TGTTT
1 TGTTT
991486 ATTGTTTTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
24 1 0.04
25 19 0.73
26 6 0.23
ACGTcount: A:0.20, C:0.07, G:0.18, T:0.55
Consensus pattern (24 bp):
TGTTTTTGGTATATCTACATAGTA
Found at i:992635 original size:18 final size:18
Alignment explanation
Indices: 992614--992658 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
992604 TCCACTTCGG
*
992614 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
992632 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
992650 GAGCCATCA
1 GAGCCATCA
992659 TCTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:993176 original size:19 final size:20
Alignment explanation
Indices: 993133--993177 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
993123 CACAACACGA
993133 AAATGACTATCGCAACGCGG
1 AAATGACTATCGCAACGCGG
* *
993153 AAATGGCTATCGCAATGC-G
1 AAATGACTATCGCAACGCGG
993172 AAATGA
1 AAATGA
993178 AAATCGCAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.38, C:0.20, G:0.24, T:0.18
Consensus pattern (20 bp):
AAATGACTATCGCAACGCGG
Found at i:993183 original size:19 final size:19
Alignment explanation
Indices: 993161--993218 Score: 65
Period size: 14 Copynumber: 3.4 Consensus size: 19
993151 GGAAATGGCT
993161 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
993180 ATCGCAAT--G--A-CAAA
1 ATCGCAATGCGAAATGAAA
993194 ATCGCAATGCGAAATG-AA
1 ATCGCAATGCGAAATGAAA
993212 ATCGCAA
1 ATCGCAA
993219 CGACAAAATC
Statistics
Matches: 32, Mismatches: 2, Indels: 11
0.71 0.04 0.24
Matches are distributed among these distances:
14 11 0.34
15 1 0.03
16 1 0.03
17 1 0.03
18 10 0.31
19 8 0.25
ACGTcount: A:0.47, C:0.19, G:0.19, T:0.16
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:993196 original size:14 final size:14
Alignment explanation
Indices: 993177--993234 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
993167 ATGCGAAATG
993177 AAAATCGCAATGAC
1 AAAATCGCAATGAC
*
993191 AAAATCGCAATGCGAA
1 AAAATCGCAAT--GAC
*
993207 ATGAAATCGCAACGAC
1 A--AAATCGCAATGAC
993223 AAAATCGCAATG
1 AAAATCGCAATG
993235 CGATTTGTGT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
14 21 0.58
16 6 0.17
18 9 0.25
ACGTcount: A:0.48, C:0.21, G:0.17, T:0.14
Consensus pattern (14 bp):
AAAATCGCAATGAC
Found at i:993224 original size:32 final size:33
Alignment explanation
Indices: 993161--993237 Score: 138
Period size: 32 Copynumber: 2.4 Consensus size: 33
993151 GGAAATGGCT
*
993161 ATCGCAATGCGAAATGAAAATCGCAATGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
993194 ATCGCAATGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
993226 ATCGCAATGCGA
1 ATCGCAATGCGA
993238 TTTGTGTTTC
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 27 0.63
33 16 0.37
ACGTcount: A:0.45, C:0.21, G:0.19, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:993268 original size:14 final size:14
Alignment explanation
Indices: 993249--993306 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
993239 TTGTGTTTCG
993249 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
* *
993263 CGTTGCAATTTCATTT
1 CGTTGCGATTT--TGT
993279 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
993295 CGTTGCGATTTT
1 CGTTGCGATTTT
993307 CATTTCGCAT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.61
16 4 0.11
18 10 0.28
ACGTcount: A:0.10, C:0.17, G:0.24, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:993285 original size:32 final size:33
Alignment explanation
Indices: 993244--993322 Score: 133
Period size: 32 Copynumber: 2.4 Consensus size: 33
993234 GCGATTTGTG
993244 TTTCGCGTTGCGATTTTGTCGTTGC-AATTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGAATTTCA
*
993276 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGAATTTCA
*
993309 TTTCGCATTGCGAT
1 TTTCGCGTTGCGAT
993323 AGCCATTTCC
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
32 25 0.57
33 19 0.43
ACGTcount: A:0.11, C:0.19, G:0.23, T:0.47
Consensus pattern (33 bp):
TTTCGCGTTGCGATTTTGTCGTTGCGAATTTCA
Found at i:993344 original size:20 final size:19
Alignment explanation
Indices: 993307--993359 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
993297 TTGCGATTTT
* *
993307 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCAATAGC
*
993326 CATTTCCGCGTTGCAATAGT
1 CATTT-CGCGTTGCAATAGC
993346 CATTTTCGCGTTGC
1 CA-TTTCGCGTTGC
993360 GATTTTAAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 5 0.17
20 21 0.72
21 3 0.10
ACGTcount: A:0.17, C:0.26, G:0.21, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCAATAGC
Done.