Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008240.1 Hibiscus syriacus cultivar Beakdansim tig00110888_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: 893855
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 5
Found at i:618038 original size:2 final size:2
Alignment explanation
Indices: 618031--618084 Score: 72
Period size: 2 Copynumber: 26.5 Consensus size: 2
618021 ACTTTGAATA
* *
618031 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AGT AT AT AC AT AA AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT
*
618074 TT AT AT AT AT A
1 AT AT AT AT AT A
618085 ATTAAACATA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
2 43 0.96
3 2 0.04
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (2 bp):
AT
Found at i:618538 original size:2 final size:2
Alignment explanation
Indices: 618531--618555 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
618521 ACTCATGTGA
618531 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 A
618556 ATTATATCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:618669 original size:25 final size:24
Alignment explanation
Indices: 618641--618692 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
618631 TACTATATTA
618641 ATATAAATTATAGTTTATAAACTAT
1 ATATAAATTATAGTTTATAAA-TAT
***
618666 ATATTTTTTATAGTTTATAAATAT
1 ATATAAATTATAGTTTATAAATAT
618690 ATA
1 ATA
618693 GTTTACATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 6 0.25
25 18 0.75
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (24 bp):
ATATAAATTATAGTTTATAAATAT
Found at i:618703 original size:26 final size:26
Alignment explanation
Indices: 618649--618721 Score: 73
Period size: 25 Copynumber: 2.8 Consensus size: 26
618639 TAATATAAAT
**
618649 TATAGTTTATAAACTATATA-TTT-TT
1 TATAGTTTATAAA-TATATAGTTTCAA
618674 TATAGTTTATAAATATATAGTTTACATA
1 TATAGTTTATAAATATATAGTTT-CA-A
618702 TATAGTTTAT--ATATATAGTT
1 TATAGTTTATAAATATATAGTT
618722 CATATAAACA
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
24 6 0.14
25 16 0.38
26 10 0.24
28 10 0.24
ACGTcount: A:0.38, C:0.03, G:0.07, T:0.52
Consensus pattern (26 bp):
TATAGTTTATAAATATATAGTTTCAA
Found at i:618726 original size:13 final size:13
Alignment explanation
Indices: 618593--618753 Score: 91
Period size: 13 Copynumber: 11.8 Consensus size: 13
618583 TTAAATTTTT
618593 TATAGTTTATACATA
1 TATAGTTTAT--ATA
*
618608 AATAGTTTATATA
1 TATAGTTTATATA
*
618621 TATA-TATATATA
1 TATAGTTTATATA
*
618633 CTATA-TTAATATAAA
1 -TATAGTT--TATATA
618648 TTATAGTTTATAAACTA
1 -TATAGTTTAT--A-TA
618665 TATA-TTT-T-T-
1 TATAGTTTATATA
618674 TATAGTTTATAAATA
1 TATAGTTTAT--ATA
*
618689 TATAGTTTACATA
1 TATAGTTTATATA
618702 TATAGTTTATATA
1 TATAGTTTATATA
*
618715 TATAGTTCATATAAA
1 TATAGTT--TATATA
* *
618730 CATAATTTATATA
1 TATAGTTTATATA
*
618743 TATAGCTTATA
1 TATAGTTTATA
618754 ATAATTATAT
Statistics
Matches: 115, Mismatches: 16, Indels: 32
0.71 0.10 0.20
Matches are distributed among these distances:
9 4 0.03
10 4 0.03
11 1 0.01
12 7 0.06
13 46 0.40
14 5 0.04
15 40 0.35
16 7 0.06
17 1 0.01
ACGTcount: A:0.43, C:0.04, G:0.05, T:0.48
Consensus pattern (13 bp):
TATAGTTTATATA
Found at i:618739 original size:81 final size:81
Alignment explanation
Indices: 618587--618740 Score: 213
Period size: 81 Copynumber: 1.9 Consensus size: 81
618577 CGATACTTAA
* * *
618587 ATTTTTTATAGTTTATACATAAATAGTTTATATATATATATATATACTATATTAATATAAATTAT
1 ATTTTTTATAGTTTATAAATAAATAGTTTACATATATATATATATACTATATTAATATAAATCAT
*
618652 AGTTTATAAACTATAT
66 AATTTATAAACTATAT
* * *
618668 ATTTTTTATAGTTTATAAATATATAGTTTACATATATAGTTTATATA-TATAGTTCATATAAA-C
1 ATTTTTTATAGTTTATAAATAAATAGTTTACATATATA-TATATATACTATA-TTAATATAAATC
618731 ATAATTTATA
64 ATAATTTATA
618741 TATATAGCTT
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
81 48 0.75
82 16 0.25
ACGTcount: A:0.42, C:0.04, G:0.05, T:0.49
Consensus pattern (81 bp):
ATTTTTTATAGTTTATAAATAAATAGTTTACATATATATATATATACTATATTAATATAAATCAT
AATTTATAAACTATAT
Found at i:618781 original size:18 final size:18
Alignment explanation
Indices: 618737--618783 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
618727 AAACATAATT
*
618737 TATATATATAGCTTATAA
1 TATATATATAGCTGATAA
618755 TA-ATTATATAGCTGATAA
1 TATA-TATATAGCTGATAA
*
618773 TATAAATATAG
1 TATATATATAG
618784 TTTATATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
17 1 0.04
18 23 0.92
19 1 0.04
ACGTcount: A:0.47, C:0.04, G:0.09, T:0.40
Consensus pattern (18 bp):
TATATATATAGCTGATAA
Found at i:618790 original size:15 final size:15
Alignment explanation
Indices: 618674--618791 Score: 70
Period size: 13 Copynumber: 7.9 Consensus size: 15
618664 ATATATTTTT
618674 TATAGTTTATA-AATA
1 TATAGTTTATATAA-A
*
618689 TATAGTTTACAT--A
1 TATAGTTTATATAAA
618702 TATAGTTTATAT--A
1 TATAGTTTATATAAA
*
618715 TATAGTTCATATAAA
1 TATAGTTTATATAAA
* *
618730 CATAATTTATAT--A
1 TATAGTTTATATAAA
*
618743 TATAGCTTATAATAATTA
1 TATAGTTTAT-ATAA--A
*
618761 TATAGCTGATAATATAAA
1 TATAG-T--TTATATAAA
618779 TATAGTTTATATA
1 TATAGTTTATATA
618792 TAAACTTATA
Statistics
Matches: 80, Mismatches: 12, Indels: 22
0.70 0.11 0.19
Matches are distributed among these distances:
13 32 0.40
14 2 0.03
15 26 0.32
17 1 0.01
18 12 0.15
20 4 0.05
21 3 0.04
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.45
Consensus pattern (15 bp):
TATAGTTTATATAAA
Found at i:624260 original size:34 final size:34
Alignment explanation
Indices: 624185--624249 Score: 114
Period size: 34 Copynumber: 1.9 Consensus size: 34
624175 TATGTGACAT
*
624185 TTTCAAAGGTTTTTTTTGTGTTCAAGAGAAACAA
1 TTTCAAAGGTTTTTTGTGTGTTCAAGAGAAACAA
624219 TTTCAAAGGTTTTTTGTGT-TTCAAGAGAAAC
1 TTTCAAAGGTTTTTTGTGTGTTCAAGAGAAAC
624250 TGTATTCAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 12 0.40
34 18 0.60
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.42
Consensus pattern (34 bp):
TTTCAAAGGTTTTTTGTGTGTTCAAGAGAAACAA
Found at i:624316 original size:36 final size:36
Alignment explanation
Indices: 624267--624887 Score: 132
Period size: 36 Copynumber: 18.4 Consensus size: 36
624257 AAAGATTAAA
* *
624267 GTTTCAAGGGAAACTGTCTGAAGAGAGACAAAATTT
1 GTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTT
*
624303 GTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA--A
1 GTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTT
* * * * * *
624337 CTTCCAAAAGAAACTGTCTCAAGGGAGACGAGATTT
1 GTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTT
* *
624373 GTTT-AACGTA-AAACATAT-TC-A-A-AG----ATTTT
1 GTTTCAA-G-AGAAAC-TGTCTCAAGAGAGACAAAATTT
* *
624402 GTTTCAA-AGGAAACTGATTTC-A-A-AG-----TTTAT
1 GTTTCAAGA-GAAACTG-TCTCAAGAGAGACAAAATT-T
* *
624432 GCTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 GTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTT
* * * * * *
624468 GTTTCAAGGGAAACTATCTCATGAGTGACGAAATTC
1 GTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTT
* * * * *
624504 ATTTCAAGGGAAA-TGTTTTC-A-A-TG-----TTTAT
1 GTTTCAAGAGAAACTG-TCTCAAGAGAGACAAAATT-T
*
624533 GTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTT
1 GTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TTT
* * * *
624570 GTTTCAAGGGAACCTATCTCAAGAGAGACAAAATTC
1 GTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTT
* * * * *
624606 ATCTCAA-AGGAAA-TGTTTTC-A-A-TG-----TTTAT
1 GTTTCAAGA-GAAACTG-TCTCAAGAGAGACAAAATT-T
* *
624635 GTTTCAAGAGAAACTATCTCAAGAGAGACAAAACTTA
1 GTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TTT
* * * * * *
624672 GTTCCAAAAGAAAATATCTCAAGGGAGACGAAATTT
1 GTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTT
* * *
624708 GTTTCAAGGGAAACATAT-TC-A-A-AG----ATTTT
1 GTTTCAAGAGAAAC-TGTCTCAAGAGAGACAAAATTT
* *
624737 GTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTC
1 GTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTT
* * * * * *
624773 ATTTCAAGGGAAA-TATTTTC-A-A-TG-----TTTAT
1 GTTTCAAGAGAAACT-GTCTCAAGAGAGACAAAATT-T
*
624802 GTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTT
1 GTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TTT
* * * *
624839 GTTTCAAGGGAACCTATCTCAAGAGAGACAAAATTC
1 GTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTT
* *
624875 ATTTCAAGGGAAA
1 GTTTCAAGAGAAA
624888 TTTTTTCAAT
Statistics
Matches: 419, Mismatches: 99, Indels: 134
0.64 0.15 0.21
Matches are distributed among these distances:
27 1 0.00
28 10 0.02
29 77 0.18
30 32 0.08
31 3 0.01
32 7 0.02
33 8 0.02
34 30 0.07
35 9 0.02
36 140 0.33
37 96 0.23
38 6 0.01
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (36 bp):
GTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTT
Found at i:624349 original size:34 final size:35
Alignment explanation
Indices: 624276--624365 Score: 110
Period size: 34 Copynumber: 2.6 Consensus size: 35
624266 AGTTTCAAGG
* ** * *
624276 GAAACTGTCTGAAGAGAGACAAAATTTGTTTCAAGA
1 GAAACTGTCTCAAGAGAGACAAAA-TACTTCCAAAA
624312 GAAACTGTCTCAAGAGAGACAAAA-ACTTCCAAAA
1 GAAACTGTCTCAAGAGAGACAAAATACTTCCAAAA
*
624346 GAAACTGTCTCAAGGGAGAC
1 GAAACTGTCTCAAGAGAGAC
624366 GAGATTTGTT
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
34 25 0.52
36 23 0.48
ACGTcount: A:0.43, C:0.17, G:0.21, T:0.19
Consensus pattern (35 bp):
GAAACTGTCTCAAGAGAGACAAAATACTTCCAAAA
Found at i:624426 original size:30 final size:30
Alignment explanation
Indices: 624390--624447 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 30
624380 GTAAAACATA
*
624390 TTCAAAGATTT-TGTTTCAA-AGGAAACTGAT
1 TTCAAAG-TTTATGCTTCAAGA-GAAACTGAT
624420 TTCAAAGTTTATGCTTCAAGAGAAACTG
1 TTCAAAGTTTATGCTTCAAGAGAAACTG
624448 TCTCAAGGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 3 0.12
30 21 0.84
31 1 0.04
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.34
Consensus pattern (30 bp):
TTCAAAGTTTATGCTTCAAGAGAAACTGAT
Found at i:624590 original size:37 final size:37
Alignment explanation
Indices: 624532--624873 Score: 156
Period size: 37 Copynumber: 10.0 Consensus size: 37
624522 TCAATGTTTA
* *
624532 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTT
* *
624569 TGTTTCAAGGGAACCTATCTCAAGAGAGACAAAA-TT
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTT
** * * * *
624605 CATCTCAA-AGGAAA-TGTTTTC-A-A-TG------TTT
1 TGTTTCAAGA-GAAACT-ATCTCAAGAGAGACAAAATTT
*
624633 ATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAACTT
1 -TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTT
* * * * * *
624671 AGTTCCAAAAGAAAATATCTCAAGGGAGACGAAA-TT
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTT
*
624707 TGTTTCAAGGGAAACATAT-TC-A-A-AG-----ATTT
1 TGTTTCAAGAGAAAC-TATCTCAAGAGAGACAAAATTT
624736 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAA-TT
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTT
** * * *
624772 CATTTCAAGGGAAA-TATTTTC-A-A-TG------TTT
1 TGTTTCAAGAGAAACTA-TCTCAAGAGAGACAAAATTT
* *
624800 ATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 -TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTT
* *
624838 TGTTTCAAGGGAACCTATCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATT
624874 CATTTCAAGG
Statistics
Matches: 218, Mismatches: 48, Indels: 78
0.63 0.14 0.23
Matches are distributed among these distances:
28 8 0.04
29 44 0.20
30 6 0.03
31 2 0.01
32 4 0.02
33 4 0.02
34 2 0.01
35 6 0.03
36 43 0.20
37 94 0.43
38 5 0.02
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.28
Consensus pattern (37 bp):
TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTT
Found at i:624605 original size:102 final size:101
Alignment explanation
Indices: 624403--624785 Score: 471
Period size: 102 Copynumber: 3.8 Consensus size: 101
624393 AAAGATTTTG
* * * *
624403 TTTCAAAGGAAACTGATTTCAAAGTTTATGCTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 TTTCAAAGGAAA-TGTTTTCAAAGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTT
* *
624468 GTTTCAAGGGAAACTATCTCATGAGTGACGAAATTCA
65 GTTTCAAGGGAAACTATCTCAAGAGAGACGAAATTCA
* * * *
624505 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTT
1 TTTCAAAGGAAATGTTTTCAAAGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAA-TTT
* *
624570 GTTTCAAGGGAACCTATCTCAAGAGAGACAAAATTCA
65 GTTTCAAGGGAAACTATCTCAAGAGAGACGAAATTCA
* * *
624607 TCTCAAAGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAACTTA
1 TTTCAAAGGAAATGTTTTCAAAGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAA-TTT
* ** * * **
624672 GTTCCAAAAGAAAATATCTCAAGGGAGACGAAATTTG
65 GTTTCAAGGGAAACTATCTCAAGAGAGACGAAATTCA
* ** * *
624709 TTTCAAGGGAAACATATTCAAAGATTT-TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTC
1 TTTCAAAGGAAATGTTTTCAAAG-TTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTT
*
624773 ATTTCAAGGGAAA
65 GTTTCAAGGGAAA
624786 TATTTTCAAT
Statistics
Matches: 245, Mismatches: 34, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
101 57 0.23
102 185 0.76
103 3 0.01
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (101 bp):
TTTCAAAGGAAATGTTTTCAAAGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTTG
TTTCAAGGGAAACTATCTCAAGAGAGACGAAATTCA
Found at i:624738 original size:167 final size:166
Alignment explanation
Indices: 624561--624932 Score: 492
Period size: 167 Copynumber: 2.2 Consensus size: 166
624551 TCAAGGGAGA
* * *
624561 CAAAATTTTGTTTCAAGGGAACCTATCTCAAGAGAGACAAAATTCATCTCAAAGGAAATGTTTTC
1 CAAAATTTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCATCTCAAAGGAAATATTTTC
624626 AATGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAAATATCT
66 AATGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAAATATCT
* * **
624691 CAAGGGAGACGAAATTTGTTTCAAGGGAAACATATT
131 CAAGAGAGACAAAATTCATTTCAAGGGAAACATATT
* *
624727 CAAAGATTTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATATTTT
1 CAAA-ATTTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCATCTCAAAGGAAATATTTT
* * * * * ** **
624792 CAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAACCTATC
65 CAATGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAAATATC
** *
624857 TCAAGAGAGACAAAATTCATTTCAAGGGAAATTTTTT
130 TCAAGAGAGACAAAATTCATTTCAAGGGAAACATATT
** * * *
624894 CAATGTTTATTTTTCAAAAGAAACTGTCTCAAGAGAGAC
1 CAAAATTT-TGTTTCAAGAGAAACTATCTCAAGAGAGAC
624933 GAAACCTAGT
Statistics
Matches: 178, Mismatches: 26, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
166 7 0.04
167 171 0.96
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.30
Consensus pattern (166 bp):
CAAAATTTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCATCTCAAAGGAAATATTTTC
AATGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAAATATCT
CAAGAGAGACAAAATTCATTTCAAGGGAAACATATT
Found at i:624773 original size:269 final size:269
Alignment explanation
Indices: 624465--624984 Score: 896
Period size: 269 Copynumber: 1.9 Consensus size: 269
624455 GGAGACAAAA
* * * * *
624465 TTTGTTTCAAGGGAAACTATCTCATGAGTGACGAAATTCATTTCAAGGGAAATGTTTTCAATGTT
1 TTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATATTTTCAATGTT
624530 TATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAACCTATCTCAAGAG
66 TATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAACCTATCTCAAGAG
*
624595 AGACAAAATTCATCTCAAAGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGAG
131 AGACAAAATTCATCTCAAAGGAAATGTTTTCAATGTTTATGTTTCAAAAGAAACTATCTCAAGAG
* *
624660 AGACAAAACTTAGTTCCAAAAGAAAATATCTCAAGGGAGACGAAATTTGTTTCAAGGGAAACATA
196 AGACAAAACCTAGTTCAAAAAGAAAATATCTCAAGGGAGACGAAATTTGTTTCAAGGGAAACATA
624725 TTCAAAGAT
261 TTCAAAGAT
624734 TTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATATTTTCAATGTT
1 TTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATATTTTCAATGTT
624799 TATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAACCTATCTCAAGAG
66 TATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAACCTATCTCAAGAG
* * * * *
624864 AGACAAAATTCATTTCAAGGGAAATTTTTTCAATGTTTATTTTTCAAAAGAAACTGTCTCAAGAG
131 AGACAAAATTCATCTCAAAGGAAATGTTTTCAATGTTTATGTTTCAAAAGAAACTATCTCAAGAG
* * *
624929 AGACGAAACCTAGTTCAAAAAGAAAATGTCTCAAGGGAGAGGAAATTTGTTTCAAG
196 AGACAAAACCTAGTTCAAAAAGAAAATATCTCAAGGGAGACGAAATTTGTTTCAAG
624985 AGAGACAAAA
Statistics
Matches: 235, Mismatches: 16, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
269 235 1.00
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.30
Consensus pattern (269 bp):
TTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATATTTTCAATGTT
TATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAACCTATCTCAAGAG
AGACAAAATTCATCTCAAAGGAAATGTTTTCAATGTTTATGTTTCAAAAGAAACTATCTCAAGAG
AGACAAAACCTAGTTCAAAAAGAAAATATCTCAAGGGAGACGAAATTTGTTTCAAGGGAAACATA
TTCAAAGAT
Found at i:624784 original size:65 final size:65
Alignment explanation
Indices: 624680--624850 Score: 236
Period size: 65 Copynumber: 2.6 Consensus size: 65
624670 TAGTTCCAAA
* *
624680 AGAAAATATCTCAAGGGAGACGAAATTTGTTTCAAGGGAAACATATTCAAAGATTT-TGTTTCAA
1 AGAAACTATCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACATATTCAAAG-TTTATGTTTCAA
624744 G
65 G
* ** * * *
624745 AGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATATTTTCAATGTTTATGTTTCAAG
1 AGAAACTATCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACATATTCAAAGTTTATGTTTCAAG
*
624810 AGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAA
1 AGAAACTATCTCAAGGGAGACAAAA-TTTGTTTCAAGGGAA
624851 CCTATCTCAA
Statistics
Matches: 92, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
64 3 0.03
65 76 0.83
66 13 0.14
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.29
Consensus pattern (65 bp):
AGAAACTATCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACATATTCAAAGTTTATGTTTCAAG
Found at i:624838 original size:102 final size:103
Alignment explanation
Indices: 624727--624932 Score: 351
Period size: 102 Copynumber: 2.0 Consensus size: 103
624717 GAAACATATT
624727 CAAAGATTTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATATTTT
1 CAAAGATTTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATATTTT
* *
624792 CAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGA
66 CAATGTTTATGTTTCAAAAGAAACTGTCTCAAGAGAGA
* * *
624830 CAAA-ATTTTGTTTCAAGGGAACCTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATTTTTT
1 CAAAGATTTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATATTTT
*
624894 CAATGTTTATTTTTCAAAAGAAACTGTCTCAAGAGAGA
66 CAATGTTTATGTTTCAAAAGAAACTGTCTCAAGAGAGA
624932 C
1 C
624933 GAAACCTAGT
Statistics
Matches: 97, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
102 93 0.96
103 4 0.04
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (103 bp):
CAAAGATTTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATATTTT
CAATGTTTATGTTTCAAAAGAAACTGTCTCAAGAGAGA
Found at i:624984 original size:102 final size:102
Alignment explanation
Indices: 624737--624968 Score: 304
Period size: 102 Copynumber: 2.3 Consensus size: 102
624727 CAAAGATTTT
* *
624737 GTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATATTTTCAATGTTTAT
1 GTTTCAAAAGAAAATATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATATTTTCAATGTTTAT
* * ** *
624802 GTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTT
66 GTTTCAAAAGAAACTGTCTCAAGAGAGACAAAACCTA
** ** *
624839 GTTTCAAGGGAACCTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATTTTTTCAATGTTTAT
1 GTTTCAAAAGAAAATATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATATTTTCAATGTTTAT
* *
624904 TTTTCAAAAGAAACTGTCTCAAGAGAGACGAAACCTA
66 GTTTCAAAAGAAACTGTCTCAAGAGAGACAAAACCTA
* *
624941 G-TTCAAAAAGAAAATGTCTCAAGGGAGA
1 GTTTC-AAAAGAAAATATCTCAAGAGAGA
624969 GGAAATTTGT
Statistics
Matches: 113, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
101 3 0.03
102 110 0.97
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.28
Consensus pattern (102 bp):
GTTTCAAAAGAAAATATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATATTTTCAATGTTTAT
GTTTCAAAAGAAACTGTCTCAAGAGAGACAAAACCTA
Found at i:625096 original size:36 final size:35
Alignment explanation
Indices: 625052--625170 Score: 107
Period size: 36 Copynumber: 3.3 Consensus size: 35
625042 TGAAAACGGT
625052 CTCAAGTGAGACAAAGTCTGTTTTAAGAAAAGCAAA
1 CTCAAGTGAGACAAAGTCTGTTTTAAGAAAA-CAAA
** * * **
625088 CTTGAGTGAAATAAA-TCT-TCTTTAAAGTAAAACAGT
1 CTCAAGTGAGACAAAGTCTGT-TTT-AAG-AAAACAAA
* *
625124 CTCAAGTGAGACAAAGTATGTTTTAAGAAAAACAAT
1 CTCAAGTGAGACAAAGTCTGTTTTAAG-AAAACAAA
625160 CTCAAGTGAGA
1 CTCAAGTGAGA
625171 TAATCATGTG
Statistics
Matches: 65, Mismatches: 13, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
34 1 0.02
35 6 0.09
36 48 0.74
37 9 0.14
38 1 0.02
ACGTcount: A:0.44, C:0.13, G:0.18, T:0.26
Consensus pattern (35 bp):
CTCAAGTGAGACAAAGTCTGTTTTAAGAAAACAAA
Found at i:625131 original size:72 final size:75
Alignment explanation
Indices: 625012--625154 Score: 220
Period size: 72 Copynumber: 1.9 Consensus size: 75
625002 AAAAAACAGT
** * *
625012 CTTGAGTGAAATGAAATGCCTTCTTTCGAGTGAAAACGGTCTCAAGTGAGACAAAGTCTGTTTTA
1 CTTGAGTGAAATGAAAT-CCTTCTTTAAAGTGAAAACAGTCTCAAGTGAGACAAAGTATGTTTTA
625077 AGAAAAGCAAA
65 AGAAAAGCAAA
625088 CTTGAGTGAAAT-AAAT-CTTCTTTAAAGT-AAAACAGTCTCAAGTGAGACAAAGTATGTTTTAA
1 CTTGAGTGAAATGAAATCCTTCTTTAAAGTGAAAACAGTCTCAAGTGAGACAAAGTATGTTTTAA
625150 GAAAA
66 GAAAA
625155 ACAATCTCAA
Statistics
Matches: 63, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
72 37 0.59
73 10 0.16
75 4 0.06
76 12 0.19
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.28
Consensus pattern (75 bp):
CTTGAGTGAAATGAAATCCTTCTTTAAAGTGAAAACAGTCTCAAGTGAGACAAAGTATGTTTTAA
GAAAAGCAAA
Found at i:625168 original size:72 final size:74
Alignment explanation
Indices: 625016--625173 Score: 203
Period size: 72 Copynumber: 2.1 Consensus size: 74
625006 AACAGTCTTG
** * *
625016 AGTGAAATGAAATGCCTTCTTTCGAGTGAAAACGGTCTCAAGTGAGACAAAGTCTGTTTTAAGAA
1 AGTGAAAT-AAAT-CCTTCTTTAAAGTGAAAACAGTCTCAAGTGAGACAAAGTATGTTTTAAGAA
* **
625081 AAGCAAACTTG
64 AAACAAACTCA
625092 AGTGAAATAAAT-CTTCTTTAAAGT-AAAACAGTCTCAAGTGAGACAAAGTATGTTTTAAGAAAA
1 AGTGAAATAAATCCTTCTTTAAAGTGAAAACAGTCTCAAGTGAGACAAAGTATGTTTTAAGAAAA
*
625155 ACAATCTCA
66 ACAAACTCA
*
625164 AGTGAGATAA
1 AGTGAAATAA
625174 TCATGTGCAT
Statistics
Matches: 73, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
72 51 0.70
73 10 0.14
75 4 0.05
76 8 0.11
ACGTcount: A:0.42, C:0.13, G:0.19, T:0.27
Consensus pattern (74 bp):
AGTGAAATAAATCCTTCTTTAAAGTGAAAACAGTCTCAAGTGAGACAAAGTATGTTTTAAGAAAA
ACAAACTCA
Found at i:626510 original size:181 final size:182
Alignment explanation
Indices: 626290--626637 Score: 572
Period size: 181 Copynumber: 1.9 Consensus size: 182
626280 AGTTTAACTT
* * * *
626290 AAGGGTTTGTCTCATCACAAAGTCTTTGGCCTGACAAAAGTAGTGGAGCAAACACCGAATTTCCA
1 AAGGGTTCGTCTCATCAC-AAGTCTTTGGCCTGACAAAAGCAATGGAGCAAACACCGAATTACCA
* *
626355 AGTGTCCGAGCAATGTCATGGTTTGAATTTAATCTATTCATAAAGCCAGGGCTTTCGAGTTTCCT
65 AGTGTCCGAGCAATGTCATGGTTTGAATGTAATCTATTCATAAAACCAGGGCTTTCGAGTTTCCT
* * *
626420 CTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGAGACAAATCACTG
130 ATATAACCAATTACCTTAGTAGAATAGCTCAGCTTTAGAGAGACAAATCACTG
*
626473 AAGGGTTCGTCTCATCAC-ATTCTTTGGCCTGACAAAAGCAATGGAGCAAACACCGAATTACCAA
1 AAGGGTTCGTCTCATCACAAGTCTTTGGCCTGACAAAAGCAATGGAGCAAACACCGAATTACCAA
* *
626537 GTGTCCGAGCAATGTCATGGTTTGAATGTAATCTATTCATAAAACTAGGGCTTTTGAGTTTCCTA
66 GTGTCCGAGCAATGTCATGGTTTGAATGTAATCTATTCATAAAACCAGGGCTTTCGAGTTTCCTA
626602 TATAACCAATTACCTTAGTAGAATAGCTCAGCTTTA
131 TATAACCAATTACCTTAGTAGAATAGCTCAGCTTTA
626638 CGGATTTAAT
Statistics
Matches: 153, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
181 136 0.89
183 17 0.11
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.30
Consensus pattern (182 bp):
AAGGGTTCGTCTCATCACAAGTCTTTGGCCTGACAAAAGCAATGGAGCAAACACCGAATTACCAA
GTGTCCGAGCAATGTCATGGTTTGAATGTAATCTATTCATAAAACCAGGGCTTTCGAGTTTCCTA
TATAACCAATTACCTTAGTAGAATAGCTCAGCTTTAGAGAGACAAATCACTG
Found at i:632337 original size:17 final size:14
Alignment explanation
Indices: 632314--632352 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 14
632304 AATAAATATT
632314 AAAATAAAAAATACTA
1 AAAATAAAAAA-AC-A
632330 ATAAATAAAAAAACA
1 A-AAATAAAAAAACA
632345 AAAATAAA
1 AAAATAAA
632353 TGAAATTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 7 0.32
15 2 0.09
16 3 0.14
17 10 0.45
ACGTcount: A:0.79, C:0.05, G:0.00, T:0.15
Consensus pattern (14 bp):
AAAATAAAAAAACA
Found at i:632391 original size:2 final size:2
Alignment explanation
Indices: 632384--632424 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
632374 AATCAAAGTA
632384 AT AT AT AT 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 AT AT AT AT A
632425 AATAAAGTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:633596 original size:19 final size:20
Alignment explanation
Indices: 633561--633598 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
633551 CTCTAAACCC
*
633561 TTTTTCAAAATTTCATTTTG
1 TTTTTCAAAATTCCATTTTG
633581 TTTTTCAAAA-TCCATTTT
1 TTTTTCAAAATTCCATTTT
633599 AGCTTTCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.26, C:0.13, G:0.03, T:0.58
Consensus pattern (20 bp):
TTTTTCAAAATTCCATTTTG
Found at i:633885 original size:21 final size:21
Alignment explanation
Indices: 633859--633935 Score: 75
Period size: 23 Copynumber: 3.6 Consensus size: 21
633849 GGTGTCAAAT
633859 TGCATCCATGCACCCCTGTAG
1 TGCATCCATGCACCCCTGTAG
**
633880 TGCATCCATGCACCTGCCACTAG
1 TGCATCCATGCACC--CCTGTAG
* * **
633903 TGCATCGATACA-CTATGTAG
1 TGCATCCATGCACCCCTGTAG
633923 TGCATCCATGCAC
1 TGCATCCATGCAC
633936 TCCATTTCGA
Statistics
Matches: 43, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
20 13 0.30
21 14 0.33
22 1 0.02
23 15 0.35
ACGTcount: A:0.23, C:0.34, G:0.18, T:0.25
Consensus pattern (21 bp):
TGCATCCATGCACCCCTGTAG
Found at i:633907 original size:23 final size:21
Alignment explanation
Indices: 633859--633908 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
633849 GGTGTCAAAT
**
633859 TGCATCCATGCACCCCTGTAG
1 TGCATCCATGCACCCCACTAG
633880 TGCATCCATGCACCTGCCACTAG
1 TGCATCCATGCACC--CCACTAG
633903 TGCATC
1 TGCATC
633909 GATACACTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 14 0.56
23 11 0.44
ACGTcount: A:0.20, C:0.38, G:0.18, T:0.24
Consensus pattern (21 bp):
TGCATCCATGCACCCCACTAG
Found at i:645990 original size:15 final size:14
Alignment explanation
Indices: 645959--645992 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
645949 AAACGCATCC
*
645959 ATTAAAAAAACATA
1 ATTAAAAAAACAGA
645973 ATTAAAAAAACAAGA
1 ATTAAAAAAAC-AGA
645988 ATTAA
1 ATTAA
645993 TTAAGTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.71, C:0.06, G:0.03, T:0.21
Consensus pattern (14 bp):
ATTAAAAAAACAGA
Found at i:654653 original size:25 final size:25
Alignment explanation
Indices: 654625--654686 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 25
654615 TGGCTATAAT
* *
654625 GTAATTTTTTTAACTTTGTATTTTA
1 GTAATTTTTTTAACTTTATATTTGA
** *
654650 GTAATTTTTAAAATTTTATATTTGA
1 GTAATTTTTTTAACTTTATATTTGA
*
654675 GTAATTGTTTTA
1 GTAATTTTTTTA
654687 GATTCTTATA
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.29, C:0.02, G:0.10, T:0.60
Consensus pattern (25 bp):
GTAATTTTTTTAACTTTATATTTGA
Found at i:656755 original size:31 final size:31
Alignment explanation
Indices: 656715--656790 Score: 100
Period size: 31 Copynumber: 2.5 Consensus size: 31
656705 GGCATGATTG
* *
656715 TATAGCATTGAAAAGTT-ATGATATGAGGTGA
1 TATAACATTGAAAAGTTCA-GATATGAGATGA
656746 TATAACATTGAAAAGTTCAGATATGAGATGA
1 TATAACATTGAAAAGTTCAGATATGAGATGA
* *
656777 TATATCACTGAAAA
1 TATAACATTGAAAA
656791 AAAATATGTT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
31 39 0.98
32 1 0.03
ACGTcount: A:0.43, C:0.07, G:0.20, T:0.30
Consensus pattern (31 bp):
TATAACATTGAAAAGTTCAGATATGAGATGA
Found at i:656907 original size:65 final size:66
Alignment explanation
Indices: 656758--657057 Score: 344
Period size: 66 Copynumber: 4.6 Consensus size: 66
656748 TAACATTGAA
656758 AAGTTC-AGATATGAGATGATATATCACTG-AAA-AAAAAT-ATGTTTTTCATTAAATATGGTCA
1 AAGTTCTA-ATATGAGATGATATATCACTGAAAAGAAAAATGATGTTTTTCATTAAATATGGTCA
656819 AC
65 AC
* ** * * * *
656821 AAGTTCAAATATGAGGCGATATATAACTGAAAATAAAATTGATGTTTTTCATTAAAT-CGGTCAA
1 AAGTTCTAATATGAGATGATATATCACTGAAAAGAAAAATGATGTTTTTCATTAAATATGGTCAA
656885 C
66 C
* * * * * * * *
656886 AAGTTTTGATGTGTGATGATATATCATTGAAAAGAAAAATAATGTTTTCCATTAAATATGATCAA
1 AAGTTCTAATATGAGATGATATATCACTGAAAAGAAAAATGATGTTTTTCATTAAATATGGTCAA
656951 C
66 C
* *
656952 AAGTTCTAATATGAGGA-GATATATCACTGAAAAGAAAAAGGATATTTTTTCATTAAATATGGTC
1 AAGTTCTAATATGA-GATGATATATCACTGAAAAGAAAAATGAT-GTTTTTCATTAAATATGGTC
*
657016 AAT
64 AAC
*
657019 AAGTTC-ATATATGAGATGATATATCACTAAAAAGAAAAA
1 AAGTTCTA-ATATGAGATGATATATCACTGAAAAGAAAAA
657058 GGACGCAAAT
Statistics
Matches: 196, Mismatches: 32, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
63 24 0.12
64 4 0.02
65 56 0.29
66 58 0.30
67 54 0.28
ACGTcount: A:0.44, C:0.09, G:0.15, T:0.33
Consensus pattern (66 bp):
AAGTTCTAATATGAGATGATATATCACTGAAAAGAAAAATGATGTTTTTCATTAAATATGGTCAA
C
Found at i:656974 original size:66 final size:65
Alignment explanation
Indices: 656758--657057 Score: 333
Period size: 65 Copynumber: 4.6 Consensus size: 65
656748 TAACATTGAA
656758 AAGTTCAGATATGAGATGATATATCACTG-AAA-AAAAAT-ATGTTTTTCATTAAATATGGTCAA
1 AAGTTCA-ATATGAGATGATATATCACTGAAAAGAAAAATAATGTTTTTCATTAAATATGGTCAA
656820 C
65 C
** * * * * *
656821 AAGTTCAAATATGAGGCGATATATAACTGAAAATAAAATTGATGTTTTTCATTAAAT-CGGTCAA
1 AAGTTC-AATATGAGATGATATATCACTGAAAAGAAAAATAATGTTTTTCATTAAATATGGTCAA
656885 C
65 C
** * * * * *
656886 AAGTTTTGATGTGTGATGATATATCATTGAAAAGAAAAATAATGTTTTCCATTAAATATGATCAA
1 AAG-TTCAATATGAGATGATATATCACTGAAAAGAAAAATAATGTTTTTCATTAAATATGGTCAA
656951 C
65 C
*
656952 AAGTTCTAATATGAGGA-GATATATCACTGAAAAGAAAAAGGATAT-TTTTTCATTAAATATGGT
1 AAGTTC-AATATGA-GATGATATATCACTGAAAAGAAAAA-TA-ATGTTTTTCATTAAATATGGT
*
657015 CAAT
62 CAAC
*
657019 AAGTTCATATATGAGATGATATATCACTAAAAAGAAAAA
1 AAGTTCA-ATATGAGATGATATATCACTGAAAAGAAAAA
657058 GGACGCAAAT
Statistics
Matches: 196, Mismatches: 29, Indels: 20
0.80 0.12 0.08
Matches are distributed among these distances:
63 24 0.12
64 4 0.02
65 56 0.29
66 55 0.28
67 55 0.28
68 2 0.01
ACGTcount: A:0.44, C:0.09, G:0.15, T:0.33
Consensus pattern (65 bp):
AAGTTCAATATGAGATGATATATCACTGAAAAGAAAAATAATGTTTTTCATTAAATATGGTCAAC
Found at i:657000 original size:131 final size:132
Alignment explanation
Indices: 656758--657057 Score: 394
Period size: 131 Copynumber: 2.3 Consensus size: 132
656748 TAACATTGAA
* * *
656758 AAGTTCAGATATGAGATGATATATCACTG-AAA-AAAAATATGTTTTTCATTAAATATGGTCAAC
1 AAGTTCATATATGAGATGATATATCACTGAAAAGAAAAATATGTTTTCCATTAAATATGATCAAC
* * ** *
656821 AAGTTCAAATATGAGGCGATATATAACTGAAAATAAAATTGAT-GTTTTTCATTAAAT-CGGTCA
66 AAGTTCAAATATGAGGAGATATATAACTGAAAAGAAAAAGGATATTTTTTCATTAAATACGGTCA
656884 AC
131 AC
* * * *
656886 AAGTT-TTGATGTGTGATGATATATCATTGAAAAGAAAAATAATGTTTTCCATTAAATATGATCA
1 AAGTTCAT-ATATGAGATGATATATCACTGAAAAGAAAAAT-ATGTTTTCCATTAAATATGATCA
* * *
656950 ACAAGTTCTAATATGAGGAGATATATCACTGAAAAGAAAAAGGATATTTTTTCATTAAATATGGT
64 ACAAGTTCAAATATGAGGAGATATATAACTGAAAAGAAAAAGGATATTTTTTCATTAAATACGGT
*
657015 CAAT
129 CAAC
*
657019 AAGTTCATATATGAGATGATATATCACTAAAAAGAAAAA
1 AAGTTCATATATGAGATGATATATCACTGAAAAGAAAAA
657058 GGACGCAAAT
Statistics
Matches: 144, Mismatches: 21, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
128 23 0.16
129 3 0.02
130 6 0.04
131 60 0.42
132 13 0.09
133 38 0.26
134 1 0.01
ACGTcount: A:0.44, C:0.09, G:0.15, T:0.33
Consensus pattern (132 bp):
AAGTTCATATATGAGATGATATATCACTGAAAAGAAAAATATGTTTTCCATTAAATATGATCAAC
AAGTTCAAATATGAGGAGATATATAACTGAAAAGAAAAAGGATATTTTTTCATTAAATACGGTCA
AC
Found at i:657031 original size:67 final size:68
Alignment explanation
Indices: 656758--657058 Score: 312
Period size: 67 Copynumber: 4.6 Consensus size: 68
656748 TAACATTGAA
*
656758 AAGTTCAGATATGA-GATGATATATCACTG--AA-AAAAA-ATATGTTTTTCATTAAATATGGTC
1 AAGTTCATATATGAGGATGATATATCACTGAAAAGAAAAAGATATGTTTTTCATTAAATATGGTC
656818 AAC
66 AAC
* * * * * *
656821 AAGTTCAAATATGAGG-CGATATATAACTGAAAA-TAAAA-TTGATGTTTTTCATTAAAT-CGGT
1 AAGTTCATATATGAGGATGATATATCACTGAAAAGAAAAAGAT-ATGTTTTTCATTAAATATGGT
656882 CAAC
65 CAAC
* * * * *
656886 AAGTT--T-TGATGTGTGATGATATATCATTGAAAAGAAAAATA-ATGTTTTCCATTAAATATGA
1 AAGTTCATAT-ATGAG-GATGATATATCACTGAAAAGAAAAAGATATGTTTTTCATTAAATATGG
656947 TCAAC
64 TCAAC
656952 AAGTTC-TAATATGAGGA-GATATATCACTGAAAAGAAAAAGGATAT-TTTTTCATTAAATATGG
1 AAGTTCAT-ATATGAGGATGATATATCACTGAAAAGAAAAA-GATATGTTTTTCATTAAATATGG
*
657014 TCAAT
64 TCAAC
*
657019 AAGTTCATATATGA-GATGATATATCACTAAAAAGAAAAAG
1 AAGTTCATATATGAGGATGATATATCACTGAAAAGAAAAAG
657059 GACGCAAATA
Statistics
Matches: 198, Mismatches: 23, Indels: 31
0.79 0.09 0.12
Matches are distributed among these distances:
62 1 0.01
63 28 0.14
64 2 0.01
65 48 0.24
66 55 0.28
67 56 0.28
68 7 0.04
69 1 0.01
ACGTcount: A:0.44, C:0.09, G:0.15, T:0.33
Consensus pattern (68 bp):
AAGTTCATATATGAGGATGATATATCACTGAAAAGAAAAAGATATGTTTTTCATTAAATATGGTC
AAC
Found at i:662611 original size:14 final size:15
Alignment explanation
Indices: 662592--662624 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
662582 CGTACCTATC
662592 AAAACAAAAAAAA-A
1 AAAACAAAAAAAACA
662606 AAAACAAAAAAAACA
1 AAAACAAAAAAAACA
662621 AAAA
1 AAAA
662625 AAGGAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (15 bp):
AAAACAAAAAAAACA
Found at i:662632 original size:14 final size:12
Alignment explanation
Indices: 662592--662626 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
662582 CGTACCTATC
662592 AAAACAAAAAAA
1 AAAACAAAAAAA
*
662604 AAAA-AACAAAA
1 AAAACAAAAAAA
662615 AAAACAAAAAAA
1 AAAACAAAAAAA
662627 GGAAAAAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAACAAAAAAA
Found at i:668515 original size:20 final size:20
Alignment explanation
Indices: 668492--668544 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
668482 TGCCAAGCCC
*
668492 TCAGTTTCGATACCGACCCA
1 TCAGTATCGATACCGACCCA
668512 TCAGTATCGATACCGACCCA
1 TCAGTATCGATACCGACCCA
668532 TCAGTATCGATAC
1 TCAGTATCGATAC
668545 TCTTTTAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.28, C:0.32, G:0.15, T:0.25
Consensus pattern (20 bp):
TCAGTATCGATACCGACCCA
Found at i:678335 original size:18 final size:18
Alignment explanation
Indices: 678296--678337 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
678286 GATTTTTAAG
* *
678296 TAAATTAATTTATAATCA
1 TAAATTAAATTATAATAA
*
678314 -AAATTAAATTATTATAA
1 TAAATTAAATTATAATAA
678331 TAAATTA
1 TAAATTA
678338 TACAAAACGA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (18 bp):
TAAATTAAATTATAATAA
Found at i:678436 original size:42 final size:42
Alignment explanation
Indices: 678389--678474 Score: 163
Period size: 42 Copynumber: 2.0 Consensus size: 42
678379 ATCAAAATAT
678389 AACTGAAAATAATATAAATATATCATAGATATAGAATAATCC
1 AACTGAAAATAATATAAATATATCATAGATATAGAATAATCC
*
678431 AACTGAAAATAATATAAATATGTCATAGATATAGAATAATCC
1 AACTGAAAATAATATAAATATATCATAGATATAGAATAATCC
678473 AA
1 AA
678475 TATGTACATT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.55, C:0.09, G:0.08, T:0.28
Consensus pattern (42 bp):
AACTGAAAATAATATAAATATATCATAGATATAGAATAATCC
Found at i:683730 original size:19 final size:19
Alignment explanation
Indices: 683706--683743 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
683696 CATAATTAGC
* *
683706 ATCGACGTTTTGTTTCCTT
1 ATCGACGGTGTGTTTCCTT
683725 ATCGACGGTGTGTTTCCTT
1 ATCGACGGTGTGTTTCCTT
683744 CTTTTGCAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.11, C:0.21, G:0.21, T:0.47
Consensus pattern (19 bp):
ATCGACGGTGTGTTTCCTT
Found at i:692503 original size:19 final size:17
Alignment explanation
Indices: 692477--692555 Score: 76
Period size: 18 Copynumber: 4.6 Consensus size: 17
692467 CGTATACAAT
692477 TATTTAAAATTAAATATA
1 TATTTAAAA-TAAATATA
692495 TATTTTAAAA-ATAATAT-
1 TA-TTTAAAATA-AATATA
692512 TATTTAAAATAAATA-A
1 TATTTAAAATAAATATA
* *
692528 -ATGTAAAATAAATAAA
1 TATTTAAAATAAATATA
692544 TATTTTAAAATA
1 TA-TTTAAAATA
692556 TTTTCATAAT
Statistics
Matches: 52, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
15 13 0.25
16 12 0.23
17 5 0.10
18 15 0.29
19 7 0.13
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (17 bp):
TATTTAAAATAAATATA
Found at i:692517 original size:16 final size:17
Alignment explanation
Indices: 692475--692526 Score: 63
Period size: 19 Copynumber: 3.1 Consensus size: 17
692465 TCCGTATACA
*
692475 ATTATTTAAAATTAAAT
1 ATTATTTAAAAATAAAT
692492 ATATATTTTAAAAAT-AAT
1 AT-TA-TTTAAAAATAAAT
692510 ATTATTT-AAAATAAAT
1 ATTATTTAAAAATAAAT
692526 A
1 A
692527 AATGTAAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
15 5 0.16
16 7 0.23
17 4 0.13
18 7 0.23
19 8 0.26
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
ATTATTTAAAAATAAAT
Found at i:692534 original size:15 final size:15
Alignment explanation
Indices: 692516--692544 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
692506 TAATATTATT
692516 TAAAATAAATAAATG
1 TAAAATAAATAAATG
692531 TAAAATAAATAAAT
1 TAAAATAAATAAAT
692545 ATTTTAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (15 bp):
TAAAATAAATAAATG
Found at i:692906 original size:20 final size:20
Alignment explanation
Indices: 692881--692924 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
692871 GCGATATTCT
692881 AAATTCGCAACGCGAAAGTC
1 AAATTCGCAACGCGAAAGTC
692901 AAATTCGCAACGCGAAAGTC
1 AAATTCGCAACGCGAAAGTC
692921 AAAT
1 AAAT
692925 GTTTTTACGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.43, C:0.23, G:0.18, T:0.16
Consensus pattern (20 bp):
AAATTCGCAACGCGAAAGTC
Found at i:693062 original size:22 final size:22
Alignment explanation
Indices: 693037--693087 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
693027 CTACGGCGAC
693037 ATCCGTCCCCATCTCCGACGAA
1 ATCCGTCCCCATCTCCGACGAA
*
693059 ATCCGTCCCCATTTCCGACGAA
1 ATCCGTCCCCATCTCCGACGAA
693081 ATCCGTC
1 ATCCGTC
693088 TATCTCCATC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.22, C:0.43, G:0.14, T:0.22
Consensus pattern (22 bp):
ATCCGTCCCCATCTCCGACGAA
Found at i:693375 original size:19 final size:20
Alignment explanation
Indices: 693337--693379 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
693327 AACACCAAAT
693337 TCGCAACGCGAAAATGAAAA
1 TCGCAACGCGAAAATGAAAA
693357 TCGCAACGC-AAAACT-AAAA
1 TCGCAACGCGAAAA-TGAAAA
693376 TCGC
1 TCGC
693380 GTTGCGAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.47, C:0.26, G:0.16, T:0.12
Consensus pattern (20 bp):
TCGCAACGCGAAAATGAAAA
Found at i:696367 original size:19 final size:20
Alignment explanation
Indices: 696325--696394 Score: 72
Period size: 19 Copynumber: 3.6 Consensus size: 20
696315 ACTAAAACCT
* *
696325 GTTGCGAAATT-AAATTCGC
1 GTTGCGAATTTGAAATTCGA
*
696344 TTTGCGAATTTGAAATTC-A
1 GTTGCGAATTTGAAATTCGA
** *
696363 GTTGCGAATTTGACTTTCGC
1 GTTGCGAATTTGAAATTCGA
696383 GTTGCGAATTTG
1 GTTGCGAATTTG
696395 GAAAATCGCA
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
19 24 0.57
20 18 0.43
ACGTcount: A:0.24, C:0.14, G:0.23, T:0.39
Consensus pattern (20 bp):
GTTGCGAATTTGAAATTCGA
Found at i:696410 original size:21 final size:21
Alignment explanation
Indices: 696386--696452 Score: 116
Period size: 21 Copynumber: 3.2 Consensus size: 21
696376 CTTTCGCGTT
696386 GCGAATTTGGAAAATCGCAAC
1 GCGAATTTGGAAAATCGCAAC
696407 GCGAATTTGGAAAATCGCAAC
1 GCGAATTTGGAAAATCGCAAC
* *
696428 GAGAATTTGGAAAATCGCAAT
1 GCGAATTTGGAAAATCGCAAC
696449 GCGA
1 GCGA
696453 TTTACATATT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.39, C:0.16, G:0.25, T:0.19
Consensus pattern (21 bp):
GCGAATTTGGAAAATCGCAAC
Found at i:698376 original size:20 final size:20
Alignment explanation
Indices: 698336--698378 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
698326 TTTTTAGTAT
*
698336 TTTACGATTTTTTGTTATTG
1 TTTACGATTTTTTGTCATTG
*
698356 TTTACGATTTTTTGTCGTTG
1 TTTACGATTTTTTGTCATTG
698376 TTT
1 TTT
698379 TTATTTTTTC
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:0.12, C:0.07, G:0.16, T:0.65
Consensus pattern (20 bp):
TTTACGATTTTTTGTCATTG
Found at i:701153 original size:42 final size:42
Alignment explanation
Indices: 701094--701178 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
701084 AACAGGGTAC
701094 CTGTAAAGACAATGAGAAAATCCACAGCCTTTGAAACAAATT
1 CTGTAAAGACAATGAGAAAATCCACAGCCTTTGAAACAAATT
701136 CTGTAAAGACAATGAGAAAATCCACAGCCTTTGAAACAAATT
1 CTGTAAAGACAATGAGAAAATCCACAGCCTTTGAAACAAATT
701178 C
1 C
701179 AGTCATATAG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.45, C:0.20, G:0.14, T:0.21
Consensus pattern (42 bp):
CTGTAAAGACAATGAGAAAATCCACAGCCTTTGAAACAAATT
Found at i:707169 original size:257 final size:257
Alignment explanation
Indices: 706333--707363 Score: 2001
Period size: 257 Copynumber: 4.0 Consensus size: 257
706323 GCGTGTGAAA
*
706333 CAGTCTGATATTAAGATCATGAAGCAGTTCTCAGACTACCTCCAGATAAATAAAGAGGGGGAAAA
1 CAGTCTGATATTAAGATCATGAAGCAGTTCTCAGACTACCTCCAGATAAATAAAAAGGGGGAAAA
706398 GACATGGGAAATTTAAGCTACTTACAAGTGCAGCCTGACTTTTCAAGTCCTCTAAGTTGAAATTC
66 GACATGGGAAATTTAAGCTACTTACAAGTGCAGCCTGACTTTTCAAGTCCTCTAAGTTGAAATTC
*
706463 CAGGCACCGATTCCTCTTATGTACTCTTGCTGCAAGGTGAAAGGAATTTGTATTCAAACTAATGC
131 CAGGCACTGATTCCTCTTATGTACTCTTGCTGCAAGGTGAAAGGAATTTGTATTCAAACTAATGC
706528 TTCAATAAATTATAGGCATTCTTTAGTCAAAGTAAAACTAGGTGCAATTGGATTGGATCATG
196 TTCAATAAATTATAGGCATTCTTTAGTCAAAGTAAAACTAGGTGCAATTGGATTGGATCATG
706590 CAGTCTGATATTAAGATCATGAAGCAGTTCTCAGACTACCTCCAGATAAATAAAAAGGGGGAAAA
1 CAGTCTGATATTAAGATCATGAAGCAGTTCTCAGACTACCTCCAGATAAATAAAAAGGGGGAAAA
706655 GACATGGGAAATTTAAGCTACTTACAAGTGCAGCCTGACTTTTCAAGTCCTCTAAGTTGAAATTC
66 GACATGGGAAATTTAAGCTACTTACAAGTGCAGCCTGACTTTTCAAGTCCTCTAAGTTGAAATTC
706720 CAGGCACTGATTCCTCTTATGTACTCTTGCTGCAAGGTGAAAGGAA-TTGTATTCAAACTAATGC
131 CAGGCACTGATTCCTCTTATGTACTCTTGCTGCAAGGTGAAAGGAATTTGTATTCAAACTAATGC
706784 TTCAATAAATTATAGGCATTCTTTAGTCAAAGTAAAACTAGGTGCAATTGGATTGGATCATG
196 TTCAATAAATTATAGGCATTCTTTAGTCAAAGTAAAACTAGGTGCAATTGGATTGGATCATG
706846 CAGTCTGATATTAAGATCATGAAGCAGTTCTCAGACTACCTCCAGATAAATAAAAAGGGGGAAAA
1 CAGTCTGATATTAAGATCATGAAGCAGTTCTCAGACTACCTCCAGATAAATAAAAAGGGGGAAAA
* *
706911 GACCTGGGAAATTTAAGCTACTTACAAGTGCAACCTGACTTTTCAAGTCCTCTAAGTTGAAATTC
66 GACATGGGAAATTTAAGCTACTTACAAGTGCAGCCTGACTTTTCAAGTCCTCTAAGTTGAAATTC
706976 CAGGCACTGATTCCTCTTATGTACTCTTGCTGCAAGGTGAAAGGAATTTGTATTCAAACTAATGC
131 CAGGCACTGATTCCTCTTATGTACTCTTGCTGCAAGGTGAAAGGAATTTGTATTCAAACTAATGC
707041 TTCAATAAATTATAGGCATTCTTTAGTCAAAGTAAAACTAGGTGCAATTGGATTGGATCATG
196 TTCAATAAATTATAGGCATTCTTTAGTCAAAGTAAAACTAGGTGCAATTGGATTGGATCATG
707103 CAGTCTGATATTAAGATCATGAAGCAGTTCTCAGACTACCTCCAGATAAATAAAAAGGGGGAAAA
1 CAGTCTGATATTAAGATCATGAAGCAGTTCTCAGACTACCTCCAGATAAATAAAAAGGGGGAAAA
707168 GACATGGGAAATTTAAGCTACTTACAAGTGCAGCCTGACTTTTCAAGTCCTCTAAGTTGAAATTC
66 GACATGGGAAATTTAAGCTACTTACAAGTGCAGCCTGACTTTTCAAGTCCTCTAAGTTGAAATTC
*
707233 CAGGCACTGATTCCTCTTATGTACTCTTGCTGCAAGGTGAAAGTAATTTGTATTCAAACTAATGC
131 CAGGCACTGATTCCTCTTATGTACTCTTGCTGCAAGGTGAAAGGAATTTGTATTCAAACTAATGC
*
707298 TTCAATAAATTATAGGCATTCTTTAGTCAAAGTAAAACTAGGTGAAATTGGATTGGATCATG
196 TTCAATAAATTATAGGCATTCTTTAGTCAAAGTAAAACTAGGTGCAATTGGATTGGATCATG
707360 CAGT
1 CAGT
707364 ATATAAAGCC
Statistics
Matches: 765, Mismatches: 8, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
256 254 0.33
257 511 0.67
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.29
Consensus pattern (257 bp):
CAGTCTGATATTAAGATCATGAAGCAGTTCTCAGACTACCTCCAGATAAATAAAAAGGGGGAAAA
GACATGGGAAATTTAAGCTACTTACAAGTGCAGCCTGACTTTTCAAGTCCTCTAAGTTGAAATTC
CAGGCACTGATTCCTCTTATGTACTCTTGCTGCAAGGTGAAAGGAATTTGTATTCAAACTAATGC
TTCAATAAATTATAGGCATTCTTTAGTCAAAGTAAAACTAGGTGCAATTGGATTGGATCATG
Found at i:710394 original size:21 final size:21
Alignment explanation
Indices: 710360--710399 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
710350 ATTATTGAAT
* * *
710360 TTTATTTTATCTTTTATTTCA
1 TTTATTGTACCTTTAATTTCA
710381 TTTATTGTACCTTTAATTT
1 TTTATTGTACCTTTAATTT
710400 TTTTAATTTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.20, C:0.10, G:0.03, T:0.68
Consensus pattern (21 bp):
TTTATTGTACCTTTAATTTCA
Found at i:711041 original size:23 final size:23
Alignment explanation
Indices: 711013--711072 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
711003 ATTAAACACA
*
711013 ATAACACATTAGGTAGCGCTTAT
1 ATAACACAATAGGTAGCGCTTAT
* *
711036 ATAACATAATATGTAGCGCTTAT
1 ATAACACAATAGGTAGCGCTTAT
* *
711059 ATAATAAAATAGGT
1 ATAACACAATAGGT
711073 TAATTATTTA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.32
Consensus pattern (23 bp):
ATAACACAATAGGTAGCGCTTAT
Found at i:711084 original size:158 final size:158
Alignment explanation
Indices: 710879--711366 Score: 751
Period size: 158 Copynumber: 3.1 Consensus size: 158
710869 TCAAATACAG
* * *
710879 TAACATATTAGGTAGCGCTTATATAATAAAATAGGTTAATTAATTAATTTATTATTATAACATAT
1 TAACATAATAGGTAGCGCTTATATAATAAAATAGGTTAATTAATTAATTTGTTATTACAACATAT
** * *
710944 TAGGTAAACGCTTAAAATGTTACCAATGATAACATAACCGGTTAATTACTAAAAACATTATTAAA
66 TAGGTAAACGCTTAAAATGTTACCAATGATAACATAACCGGTTAATTACTGGAAACATTATCAAG
* *
711009 CACAATAACACATTAGGTAGCGCTTATA
131 CATAATAACATATTAGGTAGCGCTTATA
* *
711037 TAACATAATATGTAGCGCTTATATAATAAAATAGGTTAATTATTTAATTTGTTATTACAACATAT
1 TAACATAATAGGTAGCGCTTATATAATAAAATAGGTTAATTAATTAATTTGTTATTACAACATAT
*
711102 TAGGTAAACGCCTAAAATGTTACCAATGATAACATAACCGGTTAATTACTGGAAACATTATCAAG
66 TAGGTAAACGCTTAAAATGTTACCAATGATAACATAACCGGTTAATTACTGGAAACATTATCAAG
711167 CATAATAACATATTAGGTAGCGCTTATA
131 CATAATAACATATTAGGTAGCGCTTATA
* * * *
711195 TAACGTAATAGGTAACGCTTATATAATAAAATAGGTTAATTACTTAATTTGTTATTACAACACAT
1 TAACATAATAGGTAGCGCTTATATAATAAAATAGGTTAATTAATTAATTTGTTATTACAACATAT
* * * * *
711260 TAGGTAAACACTTAAAATGTTACCAAAGATAACATAACTGATTAATTACTGGAAATATTATCAAG
66 TAGGTAAACGCTTAAAATGTTACCAATGATAACATAACCGGTTAATTACTGGAAACATTATCAAG
* * *
711325 CATAATAACATATTAGATAACGCTTATG
131 CATAATAACATATTAGGTAGCGCTTATA
*
711353 TAACAAAATAGGTA
1 TAACATAATAGGTA
711367 ATTACTTACT
Statistics
Matches: 302, Mismatches: 28, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
158 302 1.00
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.33
Consensus pattern (158 bp):
TAACATAATAGGTAGCGCTTATATAATAAAATAGGTTAATTAATTAATTTGTTATTACAACATAT
TAGGTAAACGCTTAAAATGTTACCAATGATAACATAACCGGTTAATTACTGGAAACATTATCAAG
CATAATAACATATTAGGTAGCGCTTATA
Found at i:711197 original size:23 final size:23
Alignment explanation
Indices: 711171--711230 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
711161 ATCAAGCATA
* *
711171 ATAACATATTAGGTAGCGCTTAT
1 ATAACATAATAGGTAACGCTTAT
*
711194 ATAACGTAATAGGTAACGCTTAT
1 ATAACATAATAGGTAACGCTTAT
* *
711217 ATAATAAAATAGGT
1 ATAACATAATAGGT
711231 TAATTACTTA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.32
Consensus pattern (23 bp):
ATAACATAATAGGTAACGCTTAT
Found at i:711543 original size:72 final size:74
Alignment explanation
Indices: 711435--711610 Score: 275
Period size: 72 Copynumber: 2.4 Consensus size: 74
711425 AAAATTTAAA
* * *
711435 CTACCTATTACATTAAAATACCTACCGGTTTTTTTGAAGGCTGCTAATACTGTAAACGGT-AAAA
1 CTACCTATTACATTAAAATACCTACCGGATTTTTTGAAGGCTGCTAATAATATAAACGGTAAAAA
*
711499 AAATA-GTG
66 AAATAGGCG
* *
711507 TTACCTATTACATTAAAATACCTACCGGATTTTTTGAAGGTTGCTAATAATATAAACGGTAAAAA
1 CTACCTATTACATTAAAATACCTACCGGATTTTTTGAAGGCTGCTAATAATATAAACGGTAAAAA
711572 AAATAGGCG
66 AAATAGGCG
*
711581 CTACCTATTACATTAAACTACCTACCGGAT
1 CTACCTATTACATTAAAATACCTACCGGAT
711611 ATGTTGAAAG
Statistics
Matches: 94, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
72 55 0.59
73 9 0.10
74 30 0.32
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.31
Consensus pattern (74 bp):
CTACCTATTACATTAAAATACCTACCGGATTTTTTGAAGGCTGCTAATAATATAAACGGTAAAAA
AAATAGGCG
Found at i:711708 original size:18 final size:19
Alignment explanation
Indices: 711685--711728 Score: 63
Period size: 21 Copynumber: 2.3 Consensus size: 19
711675 TAATAGCTCC
711685 TATAAA-GTATCGATACTT
1 TATAAATGTATCGATACTT
711703 TATAAAAATGTATCGATACTT
1 TAT--AAATGTATCGATACTT
711724 TATAA
1 TATAA
711729 TATTACAGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
18 3 0.13
19 2 0.09
20 3 0.13
21 15 0.65
ACGTcount: A:0.43, C:0.09, G:0.09, T:0.39
Consensus pattern (19 bp):
TATAAATGTATCGATACTT
Found at i:711885 original size:112 final size:112
Alignment explanation
Indices: 711688--712162 Score: 586
Period size: 112 Copynumber: 4.3 Consensus size: 112
711678 TAGCTCCTAT
* * *
711688 AAAGTATCGATACTTTATAAAAATGTATCGATACTTTATAATATTACAGGTAAAAATATGACAAA
1 AAAGTATCGATATTTTATAAAAATGTATCGATACTTTACAATATAACAGGTAAAAATATGACAAA
711753 ACCAGTTTCATTATGACAAAATCGGTAAAGAGCTACCTGATATGTTG
66 ACCAGTTTCATTATGACAAAATCGGTAAAGAGCTACCTGATATGTTG
* * *
711800 AAAGTATCGATATTTTATTAAAATGTATTGATACTTTACAATATAACATGTAAAAATATGACAAA
1 AAAGTATCGATATTTTATAAAAATGTATCGATACTTTACAATATAACAGGTAAAAATATGACAAA
*
711865 ACCAGTTTCATTATTACAAAATCGGTAAAGAGCTACCTGATATGTTG
66 ACCAGTTTCATTATGACAAAATCGGTAAAGAGCTACCTGATATGTTG
* *
711912 AAAGTATCGATCTTTTTTATAAAAAAAATGTATCGATACTTTACAATATAACAAGTAAAAATATG
1 AAAGTATCGA--TATTTTAT---AAAAATGTATCGATACTTTACAATATAACAGGTAAAAATATG
* * *
711977 ACAAAACCAGTTTTATTATGACAAAACCGGTAAAGAGCTACATG--A--TT-
61 ACAAAACCAGTTTCATTATGACAAAATCGGTAAAGAGCTACCTGATATGTTG
* *
712024 --A--ATC-CT-TTTTATAAAAATGTATTGATACTTTACAATATAACAGGTAAAAATATGAC--A
1 AAAGTATCGATATTTTATAAAAATGTATCGATACTTTACAATATAACAGGTAAAAATATGACAAA
* * * *
712081 ACCAGTTT-ATTGTGACAAAA-CTGGTAAATAGCTACCAGATATGTTA
66 ACCAGTTTCATTATGACAAAATC-GGTAAAGAGCTACCTGATATGTTG
* ** *
712127 AAAGTATAGATATTTT-TGTACATGTATCGATACTTT
1 AAAGTATCGATATTTTATAAAAATGTATCGATACTTT
712163 GTTGAAAGTT
Statistics
Matches: 318, Mismatches: 28, Indels: 38
0.83 0.07 0.10
Matches are distributed among these distances:
97 1 0.00
98 24 0.08
99 9 0.03
100 1 0.00
101 42 0.13
102 2 0.01
104 6 0.02
105 2 0.01
107 2 0.01
108 20 0.06
109 4 0.01
110 1 0.00
112 115 0.36
113 2 0.01
114 7 0.02
115 1 0.00
117 79 0.25
ACGTcount: A:0.42, C:0.12, G:0.13, T:0.33
Consensus pattern (112 bp):
AAAGTATCGATATTTTATAAAAATGTATCGATACTTTACAATATAACAGGTAAAAATATGACAAA
ACCAGTTTCATTATGACAAAATCGGTAAAGAGCTACCTGATATGTTG
Found at i:712051 original size:101 final size:98
Alignment explanation
Indices: 711935--712115 Score: 290
Period size: 101 Copynumber: 1.8 Consensus size: 98
711925 TTTTTATAAA
711935 AAAAATGTATCGATACTTTACAATATAACAAGTAAAAATATGACAAAACCAGTTTTATTATGACA
1 AAAAATGTATCGATACTTTACAATATAACAAGTAAAAATATGAC--AACCAG-TTTATTATGACA
712000 AAACCGGTAAAGAGCTACATGATTAATCCTTTTTAT
63 AAACCGGTAAAGAGCTACATGATTAATCCTTTTTAT
* * *
712036 AAAAATGTATTGATACTTTACAATATAACAGGTAAAAATATGACAACCAGTTTATTGTGACAAAA
1 AAAAATGTATCGATACTTTACAATATAACAAGTAAAAATATGACAACCAGTTTATTATGACAAAA
* *
712101 CTGGTAAATAGCTAC
66 CCGGTAAAGAGCTAC
712116 CAGATATGTT
Statistics
Matches: 75, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
98 27 0.36
99 6 0.08
101 42 0.56
ACGTcount: A:0.45, C:0.13, G:0.12, T:0.30
Consensus pattern (98 bp):
AAAAATGTATCGATACTTTACAATATAACAAGTAAAAATATGACAACCAGTTTATTATGACAAAA
CCGGTAAAGAGCTACATGATTAATCCTTTTTAT
Found at i:713168 original size:19 final size:19
Alignment explanation
Indices: 713144--713181 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
713134 TGTTAGAGAG
713144 TTGGGAATGGAGGAAATGT
1 TTGGGAATGGAGGAAATGT
713163 TTGGGAATGGAGGAAATGT
1 TTGGGAATGGAGGAAATGT
713182 CATGAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.42, T:0.26
Consensus pattern (19 bp):
TTGGGAATGGAGGAAATGT
Found at i:716706 original size:15 final size:14
Alignment explanation
Indices: 716686--716715 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
716676 TATTAAGTAC
716686 TTTAACTATGTATTT
1 TTTAACTATGT-TTT
716701 TTTAACTATGTTTT
1 TTTAACTATGTTTT
716715 T
1 T
716716 AACTTGTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.23, C:0.07, G:0.07, T:0.63
Consensus pattern (14 bp):
TTTAACTATGTTTT
Found at i:716732 original size:27 final size:28
Alignment explanation
Indices: 716686--716742 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
716676 TATTAAGTAC
* *
716686 TTTAACTATGTATTT-TTTAACTATGTT
1 TTTAACTATGTATTTGTTAAACCATGTT
716713 TTTAACT-TGTATTATGTTAAACCATGTT
1 TTTAACTATGTATT-TGTTAAACCATGTT
716741 TT
1 TT
716743 GTAATATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 6 0.23
27 8 0.31
28 12 0.46
ACGTcount: A:0.26, C:0.09, G:0.09, T:0.56
Consensus pattern (28 bp):
TTTAACTATGTATTTGTTAAACCATGTT
Found at i:722563 original size:28 final size:28
Alignment explanation
Indices: 722513--722566 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
722503 TAGTAATAAT
**
722513 TAATATTATAAAACTGTTAATAAAAAAA
1 TAATATTATAAAACAATTAATAAAAAAA
* *
722541 TAATATTCTAAAACAATTTATAAAAA
1 TAATATTATAAAACAATTAATAAAAA
722567 TATATTCAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.59, C:0.06, G:0.02, T:0.33
Consensus pattern (28 bp):
TAATATTATAAAACAATTAATAAAAAAA
Found at i:724379 original size:19 final size:19
Alignment explanation
Indices: 724352--724391 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
724342 ATACCTAAGT
* *
724352 ATTAATATATTATTTTAAA
1 ATTAATATATGAATTTAAA
*
724371 ATTATTATATGAATTTAAA
1 ATTAATATATGAATTTAAA
724390 AT
1 AT
724392 AAATTATTAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (19 bp):
ATTAATATATGAATTTAAA
Found at i:727008 original size:15 final size:15
Alignment explanation
Indices: 726977--727019 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
726967 AATTAAAGAC
*
726977 AAAATTTAATTTATTT
1 AAAATTTAA-ATATTT
726993 AAAATTTAAATATTT
1 AAAATTTAAATATTT
*
727008 AAGAATCTAAAT
1 AA-AATTTAAAT
727020 TATTATTGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 7 0.29
16 17 0.71
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (15 bp):
AAAATTTAAATATTT
Found at i:728531 original size:265 final size:265
Alignment explanation
Indices: 728058--728587 Score: 1042
Period size: 265 Copynumber: 2.0 Consensus size: 265
728048 TGGTTTTCAT
*
728058 AGAAGATTGCTACCCCTTCTCATTTATGTAGGTTATTTCATCAGATTTATCACAATATAATGTAC
1 AGAAGATTGCTACCCCTTCTCATTTACGTAGGTTATTTCATCAGATTTATCACAATATAATGTAC
728123 CCAAAGTGAGTTATGAAATAATTGAGAGCTTTTACTATAACTCATCCTCACAATAGGCAAGGTGA
66 CCAAAGTGAGTTATGAAATAATTGAGAGCTTTTACTATAACTCATCCTCACAATAGGCAAGGTGA
728188 ATTTCTTCAAGTTCTTATTAAATGATCCGCCTGAATTTTAGGATTAGAAATCATTAAGAATAAAT
131 ATTTCTTCAAGTTCTTATTAAATGATCCGCCTGAATTTTAGGATTAGAAATCATTAAGAATAAAT
728253 ATTTAACCTCGTTAATCGGTGAATTCAGTATGTATTTCTCGCTAGGATCACCCAAACTCTTGGGT
196 ATTTAACCTCGTTAATCGGTGAATTCAGTATGTATTTCTCGCTAGGATCACCCAAACTCTTGGGT
728318 TTGAA
261 TTGAA
728323 AGAAGATTGCTACCCCTTCTCATTTACGTAGGTTATTTCATCAGATTTATCACAATATAATGTAC
1 AGAAGATTGCTACCCCTTCTCATTTACGTAGGTTATTTCATCAGATTTATCACAATATAATGTAC
*
728388 CCAAATTGAGTTATGAAATAATTGAGAGCTTTTACTATAACTCATCCTCACAATAGGCAAGGTGA
66 CCAAAGTGAGTTATGAAATAATTGAGAGCTTTTACTATAACTCATCCTCACAATAGGCAAGGTGA
728453 ATTTCTTCAAGTTCTTATTAAATGATCCGCCTGAATTTTAGGATTAGAAATCATTAAGAATAAAT
131 ATTTCTTCAAGTTCTTATTAAATGATCCGCCTGAATTTTAGGATTAGAAATCATTAAGAATAAAT
728518 ATTTAACCTCGTTAATCGGTGAATTCAGTATGTATTTCTCGCTAGGATCACCCAAACTCTTGGGT
196 ATTTAACCTCGTTAATCGGTGAATTCAGTATGTATTTCTCGCTAGGATCACCCAAACTCTTGGGT
728583 TTGAA
261 TTGAA
728588 TTCATTAAAA
Statistics
Matches: 263, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
265 263 1.00
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.35
Consensus pattern (265 bp):
AGAAGATTGCTACCCCTTCTCATTTACGTAGGTTATTTCATCAGATTTATCACAATATAATGTAC
CCAAAGTGAGTTATGAAATAATTGAGAGCTTTTACTATAACTCATCCTCACAATAGGCAAGGTGA
ATTTCTTCAAGTTCTTATTAAATGATCCGCCTGAATTTTAGGATTAGAAATCATTAAGAATAAAT
ATTTAACCTCGTTAATCGGTGAATTCAGTATGTATTTCTCGCTAGGATCACCCAAACTCTTGGGT
TTGAA
Found at i:729935 original size:17 final size:18
Alignment explanation
Indices: 729915--729953 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
729905 TATAAGTGCT
729915 TAAATAAAATAAA-ATCA
1 TAAATAAAATAAAGATCA
*
729932 TAAATAACATAAAGATCA
1 TAAATAAAATAAAGATCA
729950 -AAAT
1 TAAAT
729954 GCAAGATACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.67, C:0.08, G:0.03, T:0.23
Consensus pattern (18 bp):
TAAATAAAATAAAGATCA
Found at i:730047 original size:21 final size:22
Alignment explanation
Indices: 730021--730076 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 22
730011 CTCATGGGGT
730021 TAAAATAAAATAAACAG-AGAA
1 TAAAATAAAATAAACAGAAGAA
* * * *
730042 TAAAATACACTAATCAGAAGAC
1 TAAAATAAAATAAACAGAAGAA
730064 TAAAATTAAAATA
1 TAAAA-TAAAATA
730077 TTAAAAATGA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
21 14 0.52
22 8 0.30
23 5 0.19
ACGTcount: A:0.64, C:0.09, G:0.07, T:0.20
Consensus pattern (22 bp):
TAAAATAAAATAAACAGAAGAA
Found at i:730121 original size:14 final size:14
Alignment explanation
Indices: 730102--730128 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
730092 AAAAATAAAA
730102 AATAAAATTAAAGT
1 AATAAAATTAAAGT
730116 AATAAAATTAAAG
1 AATAAAATTAAAG
730129 GATTGAAATT
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:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (14 bp):
AATAAAATTAAAGT
Found at i:730137 original size:14 final size:14
Alignment explanation
Indices: 730102--730141 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
730092 AAAAATAAAA
*
730102 AATAAAATTAAAGT
1 AATAAAATTAAAGG
730116 AATAAAATTAAAGG
1 AATAAAATTAAAGG
* *
730130 ATTGAAATTAAA
1 AATAAAATTAAA
730142 CTAAATTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.28
Consensus pattern (14 bp):
AATAAAATTAAAGG
Found at i:730169 original size:21 final size:21
Alignment explanation
Indices: 730134--730177 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
730124 TAAAGGATTG
*
730134 AAATTAAACTAAATTAAAAGGC
1 AAATCAAACTAAATT-AAAGGC
730156 AAATCAAA-TAAATTAAAGGC
1 AAATCAAACTAAATTAAAGGC
730176 AA
1 AA
730178 TTAATAGACA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 8 0.38
21 6 0.29
22 7 0.33
ACGTcount: A:0.61, C:0.09, G:0.09, T:0.20
Consensus pattern (21 bp):
AAATCAAACTAAATTAAAGGC
Found at i:732261 original size:136 final size:136
Alignment explanation
Indices: 732015--732368 Score: 453
Period size: 136 Copynumber: 2.6 Consensus size: 136
732005 ACGAAAGCTA
* * *
732015 AGGTCGAACAAGTTATTCTCATTATGAACTCCTTCTCCCT-TATC-AGATGAGTTCTTCTCATTA
1 AGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTATCGA-ATGAGTTCTTCTCATTA
* ** * * * * ** **
732078 TGAACTCTCAATTGGAAATATTGATCCCTCGAGTGAGGTGTTGCTGATTTGAAATG-CTGTGAAT
65 TGAACCCTCAATTGGAAATATCAACCCCTCAAGCGAGGCGTCACTGATTCAAAATGTC-GTGAAT
732142 CGAACGAT
129 CGAACGAT
*
732150 AGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGAATGAGTTCTTCTCATTAT
1 AGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTATCGAATGAGTTCTTCTCATTAT
* **
732215 GAACCCTCCATTTTAAATATCAACCCCTCAAGCGAGGCGTCACTGATTCAAAATGTCGTGAATCG
66 GAACCCTCAATTGGAAATATCAACCCCTCAAGCGAGGCGTCACTGATTCAAAATGTCGTGAATCG
**
732280 AGTGAT
131 AACGAT
* *
732286 AGGTCGAACAAGCTCTTCTCATTATAAACTTCTTCTCCCTCTATCGGATGAGTTCTTCTCATTAT
1 AGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTATCGAATGAGTTCTTCTCATTAT
* *
732351 GAACTCTCAAGTGGAAAT
66 GAACCCTCAATTGGAAAT
732369 TTTGATTGGT
Statistics
Matches: 188, Mismatches: 28, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
135 37 0.20
136 149 0.79
137 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.34
Consensus pattern (136 bp):
AGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTATCGAATGAGTTCTTCTCATTAT
GAACCCTCAATTGGAAATATCAACCCCTCAAGCGAGGCGTCACTGATTCAAAATGTCGTGAATCG
AACGAT
Found at i:733198 original size:55 final size:56
Alignment explanation
Indices: 733117--733316 Score: 198
Period size: 56 Copynumber: 3.6 Consensus size: 56
733107 ATTTACAGTT
* *
733117 ATCAAGAAACCCCT-AAAATTAGGCTTAGTTTCTTTCAAAATTTCATTT-A-AAAAC
1 ATCAAGAAACCCCTAAAAATCAGGCTTAGTTTCTTT-AAAATTTCATTTGAGAAATC
* * **
733171 ATCAAGAAACCCCTGAAAATCAGGCTTAGTTTC--TAAAATCTTTCATTTCAGTTATC
1 ATCAAGAAACCCCTAAAAATCAGGCTTAGTTTCTTTAAAA--TTTCATTTGAGAAATC
* * ** *
733227 ATCAAGTAACCCCTAAAAATTAGGCTTAG-CCCTTTAAAAATTC-TTTGGAGATAATC
1 ATCAAGAAACCCCTAAAAATCAGGCTTAGTTTCTTTAAAATTTCATTT-GAGA-AATC
*
733283 ATCAAGAAACCCCTAAAAATCAGGCTTACTTTCT
1 ATCAAGAAACCCCTAAAAATCAGGCTTAGTTTCT
733317 AAAAACTCAT
Statistics
Matches: 118, Mismatches: 18, Indels: 17
0.77 0.12 0.11
Matches are distributed among these distances:
52 4 0.03
53 1 0.01
54 25 0.21
55 24 0.20
56 57 0.48
57 7 0.06
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.32
Consensus pattern (56 bp):
ATCAAGAAACCCCTAAAAATCAGGCTTAGTTTCTTTAAAATTTCATTTGAGAAATC
Found at i:733463 original size:42 final size:41
Alignment explanation
Indices: 733350--733463 Score: 122
Period size: 42 Copynumber: 2.7 Consensus size: 41
733340 GCCCAAAGGT
* * * *
733350 CTTATGGATAGCCCGAAGGACTTATCATCTTGCTCGAAATA
1 CTTATAGATGGCCCGAAGGACTTATCATCATGCTCGAAAGA
* * * *
733391 CTTATAGATGACCCGAATGATTTAAGCATCATGCTCGAAAGA
1 CTTATAGATGGCCCGAAGGACTT-ATCATCATGCTCGAAAGA
733433 CTTACT-GATGGCCCGAAGGACTTACTCATCA
1 CTTA-TAGATGGCCCGAAGGACTTA-TCATCA
733464 AGAAACCCTT
Statistics
Matches: 58, Mismatches: 12, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
41 19 0.33
42 38 0.66
43 1 0.02
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (41 bp):
CTTATAGATGGCCCGAAGGACTTATCATCATGCTCGAAAGA
Found at i:733740 original size:42 final size:41
Alignment explanation
Indices: 733627--733740 Score: 122
Period size: 42 Copynumber: 2.7 Consensus size: 41
733617 ACCTGAAGGT
* * *
733627 CTTATGGATGGCCCAAATGACTTATCATCTTGCTCAAAAGA
1 CTTATAGATGGCCCGAATGACTTATCATCATGCTCAAAAGA
* * * *
733668 CTTATAGATGACCCGAATGATTTAAGCATCATGCTCGAAAGA
1 CTTATAGATGGCCCGAATGACTT-ATCATCATGCTCAAAAGA
*
733710 CTTACT-GATGGCCCGAAGGACTTACTCATCA
1 CTTA-TAGATGGCCCGAATGACTTA-TCATCA
733741 AGGAACCCTT
Statistics
Matches: 59, Mismatches: 11, Indels: 5
0.79 0.15 0.07
Matches are distributed among these distances:
41 20 0.34
42 38 0.64
43 1 0.02
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (41 bp):
CTTATAGATGGCCCGAATGACTTATCATCATGCTCAAAAGA
Found at i:733753 original size:277 final size:275
Alignment explanation
Indices: 733228--733889 Score: 1024
Period size: 277 Copynumber: 2.4 Consensus size: 275
733218 TCAGTTATCA
*
733228 TCAAGTAACCCCTAAAAATTAGGCTTAGC--CC-TTTAAAAATTCTTTGGAGATAATCATCAAGA
1 TCAAGTAACCCCTAAAAATTAGGCTTAGCTTCCTTTTAAAAACTCTTTGGAGATAATCATCAAGA
* *
733290 AACCCCTAAAAATCAGGCTTACTTTCTAAAAACTCATTTGAAAACATCCTGCCCAAAGGTCTTAT
66 AACCCCTAAAAATCAGGCTTAATTTCTAAAAACTCATTTGAAAACATCCTACCCAAAGGTCTTAT
* * *
733355 GGATAGCCCGAAGGACTTATCATCTTGCTCGAAATACTTATAGATGACCCGAATGATTTAAGCAT
131 GGATAGCCCAAAGGACTTATCATCTTGCTCAAAAGACTTATAGATGACCCGAATGATTTAAGCAT
733420 CATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACTCATCAAGAAACCCTTGAAAATAAAGC
196 CATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACTCATCAAGAAACCCTTGAAAATAAAGC
*
733485 TTAGTTTTTTAATTG
261 TTAGTTTCTTAATTG
*
733500 TCAAGGAACCCCTAAAAATTAGGCTTAGCTTCCTTTTTTAAAAACTCTTTGGAGATAATCATCAA
1 TCAAGTAACCCCTAAAAATTAGGCTTAGCTTCC--TTTTAAAAACTCTTTGGAGATAATCATCAA
* ** * **
733565 GAAACCCCTGAAAGCCAGGCTTAGTTTCTAAAAACTCATTTGAAAACATCCTACCTGAAGGTCTT
64 GAAACCCCTAAAAATCAGGCTTAATTTCTAAAAACTCATTTGAAAACATCCTACCCAAAGGTCTT
* *
733630 ATGGATGGCCCAAATGACTTATCATCTTGCTCAAAAGACTTATAGATGACCCGAATGATTTAAGC
129 ATGGATAGCCCAAAGGACTTATCATCTTGCTCAAAAGACTTATAGATGACCCGAATGATTTAAGC
* *
733695 ATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACTCATCAAGGAACCCTTGAAAATCAA
194 ATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACTCATCAAGAAACCCTTGAAAATAAA
*
733760 GCTTAGTTTCTTAGTTG
259 GCTTAGTTTCTTAATTG
* * * * * * * * * *
733777 TCAAATAACCCCTAAAAATTAGGCTTGGATTCCTTTTAGAAACTCATTGAAAATCATCATTAATA
1 TCAAGTAACCCCTAAAAATTAGGCTTAGCTTCCTTTTAAAAACTCTTTGGAGATAATCATCAAGA
733842 AACCCCTAAAAATCAGGCTTAATTTCTAAAAACTCATTTGAAAACATC
66 AACCCCTAAAAATCAGGCTTAATTTCTAAAAACTCATTTGAAAACATC
733890 AAGAAACCCC
Statistics
Matches: 352, Mismatches: 33, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
272 28 0.08
274 2 0.01
275 69 0.20
277 253 0.72
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (275 bp):
TCAAGTAACCCCTAAAAATTAGGCTTAGCTTCCTTTTAAAAACTCTTTGGAGATAATCATCAAGA
AACCCCTAAAAATCAGGCTTAATTTCTAAAAACTCATTTGAAAACATCCTACCCAAAGGTCTTAT
GGATAGCCCAAAGGACTTATCATCTTGCTCAAAAGACTTATAGATGACCCGAATGATTTAAGCAT
CATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACTCATCAAGAAACCCTTGAAAATAAAGC
TTAGTTTCTTAATTG
Found at i:735243 original size:28 final size:28
Alignment explanation
Indices: 735205--735283 Score: 140
Period size: 28 Copynumber: 2.8 Consensus size: 28
735195 AGGATGCCTT
735205 GGGAAGGTAATGTGTTTCAGGTTAATTTG
1 GGGAA-GTAATGTGTTTCAGGTTAATTTG
735234 GGGAAGTAATGTGTTTCAGGTTAATTTG
1 GGGAAGTAATGTGTTTCAGGTTAATTTG
*
735262 GGGAGGTAATGTGTTTCAGGTT
1 GGGAAGTAATGTGTTTCAGGTT
735284 GGCTTCTTGC
Statistics
Matches: 49, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
28 44 0.90
29 5 0.10
ACGTcount: A:0.23, C:0.04, G:0.35, T:0.38
Consensus pattern (28 bp):
GGGAAGTAATGTGTTTCAGGTTAATTTG
Found at i:735952 original size:11 final size:11
Alignment explanation
Indices: 735936--736032 Score: 61
Period size: 11 Copynumber: 8.4 Consensus size: 11
735926 CTTTCTTTTC
735936 TTTTTTTCTCT
1 TTTTTTTCTCT
735947 TTTTTTTCTCT
1 TTTTTTTCTCT
*
735958 CTTTTTTCT-T
1 TTTTTTTCTCT
* *
735968 TTTCTTTTTTAT
1 TTT-TTTTCTCT
* * *
735980 TCTTTCTTATGT
1 T-TTTTTTCTCT
*
735992 TTTTTATTCTTT
1 TTTTT-TTCTCT
736004 TTTTCTTTCTCT
1 TTTT-TTTCTCT
*
736016 CTTCTTTTTTTCT
1 -TT-TTTTTCTCT
736029 TTTT
1 TTTT
736033 ATATCCTTTT
Statistics
Matches: 68, Mismatches: 11, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
10 3 0.04
11 29 0.43
12 23 0.34
13 11 0.16
14 2 0.03
ACGTcount: A:0.03, C:0.16, G:0.01, T:0.79
Consensus pattern (11 bp):
TTTTTTTCTCT
Found at i:735969 original size:27 final size:27
Alignment explanation
Indices: 735922--736026 Score: 104
Period size: 28 Copynumber: 3.7 Consensus size: 27
735912 ATTTGATCGG
*
735922 TTTTCTTTCTTTTCTTTTTTTCTCTTTT
1 TTTTCTCTCTTTT-TTTTTTTCTCTTTT
735950 TTTTCTCTCTTTTTTCTTTTTCT-TTTT
1 TTTTCTCTCTTTTTT-TTTTTCTCTTTT
* * *
735977 TATTCTTTCTTATGTTTTTTATTCTTTTTT
1 TTTTCTCTCTT-T-TTTTTT-TTCTCTTTT
*
736007 TCTTTCTCTCTTCTTTTTTT
1 T-TTTCTCTCTTTTTTTTTT
736027 CTTTTTATAT
Statistics
Matches: 65, Mismatches: 6, Indels: 12
0.78 0.07 0.14
Matches are distributed among these distances:
27 15 0.23
28 24 0.37
29 13 0.20
30 5 0.08
31 8 0.12
ACGTcount: A:0.03, C:0.17, G:0.01, T:0.79
Consensus pattern (27 bp):
TTTTCTCTCTTTTTTTTTTTCTCTTTT
Found at i:735984 original size:55 final size:57
Alignment explanation
Indices: 735924--736041 Score: 147
Period size: 57 Copynumber: 2.1 Consensus size: 57
735914 TTGATCGGTT
*
735924 TTCTTTCTT-T-TCTTTTT-TTCTCTTTTT-TTTCTCTCTTTTTTCTTTTTCTTTTT-TA
1 TTCTTTCTTATGT-TTTTTATTCTCTTTTTCTTTCTCTC-TTCTT-TTTTTCTTTTTATA
*
735979 TTCTTTCTTATGTTTTTTATTCTTTTTTTCTTTCTCTCTTCTTTTTTTCTTTTTATA
1 TTCTTTCTTATGTTTTTTATTCTCTTTTTCTTTCTCTCTTCTTTTTTTCTTTTTATA
*
736036 TCCTTT
1 TTCTTT
736042 TTTGCTATAT
Statistics
Matches: 55, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
55 9 0.16
56 17 0.31
57 21 0.38
58 8 0.15
ACGTcount: A:0.04, C:0.18, G:0.01, T:0.77
Consensus pattern (57 bp):
TTCTTTCTTATGTTTTTTATTCTCTTTTTCTTTCTCTCTTCTTTTTTTCTTTTTATA
Found at i:736028 original size:27 final size:26
Alignment explanation
Indices: 735922--736032 Score: 100
Period size: 27 Copynumber: 4.1 Consensus size: 26
735912 ATTTGATCGG
* *
735922 TTTTCTTTCTTTTCTTTTTTTCTCTTT
1 TTTTCTTTC-TCTCTTTTTTTTTCTTT
* *
735949 TTTT-TCTCTCTTTTTTCTTTTTCTTTT
1 TTTTCTTTCTCTCTTTT-TTTTTC-TTT
*
735976 TTATTCTTTCT-TATGTTTTTTATTCTTT
1 TT-TTCTTTCTCTCT-TTTTTT-TTCTTT
736004 TTTTCTTTCTCTCTTCTTTTTTTCTTT
1 TTTTCTTTCTCTCTT-TTTTTTTCTTT
736031 TT
1 TT
736033 ATATCCTTTT
Statistics
Matches: 69, Mismatches: 7, Indels: 16
0.75 0.08 0.17
Matches are distributed among these distances:
25 6 0.09
26 8 0.12
27 26 0.38
28 19 0.28
29 10 0.14
ACGTcount: A:0.03, C:0.17, G:0.01, T:0.79
Consensus pattern (26 bp):
TTTTCTTTCTCTCTTTTTTTTTCTTT
Found at i:736041 original size:19 final size:18
Alignment explanation
Indices: 735924--736044 Score: 97
Period size: 19 Copynumber: 6.5 Consensus size: 18
735914 TTGATCGGTT
735924 TTCTTTCTTTTCTTTTTT-
1 TTCTTT-TTTTCTTTTTTA
735942 TCTCTTTTTTTTCTCTCTTTT-
1 T-TC-TTTTTTTCT-T-TTTTA
735963 TTC--TTTTTCTTTTTTA
1 TTCTTTTTTTCTTTTTTA
* *
735979 TTCTTTCTTATGTTTTTTA
1 TTCTTT-TTTTCTTTTTTA
* *
735998 TTCTTTTTTTCTTTCTCTC
1 TTCTTTTTTTCTTT-TTTA
736017 TTCTTTTTTTCTTTTTATA
1 TTCTTTTTTTCTTTTT-TA
*
736036 TCCTTTTTT
1 TTCTTTTTT
736045 GCTATATATT
Statistics
Matches: 84, Mismatches: 9, Indels: 19
0.75 0.08 0.17
Matches are distributed among these distances:
15 4 0.05
16 4 0.05
17 7 0.08
18 9 0.11
19 49 0.58
20 6 0.07
21 5 0.06
ACGTcount: A:0.04, C:0.17, G:0.01, T:0.78
Consensus pattern (18 bp):
TTCTTTTTTTCTTTTTTA
Found at i:737352 original size:21 final size:21
Alignment explanation
Indices: 737311--737352 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
737301 CGTTGAGATG
*
737311 CAATGTATACCATGTAGTGCA
1 CAATGTATACCATGTAATGCA
737332 CAATGTATA-CATGCTAATGCA
1 CAATGTATACCATG-TAATGCA
737353 AAGATGAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.29
Consensus pattern (21 bp):
CAATGTATACCATGTAATGCA
Found at i:739864 original size:14 final size:14
Alignment explanation
Indices: 739845--739871 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
739835 AAGAATAAAA
739845 AATAAAATTAAAGT
1 AATAAAATTAAAGT
739859 AATAAAATTAAAG
1 AATAAAATTAAAG
739872 GATTGAAATT
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:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (14 bp):
AATAAAATTAAAGT
Found at i:739880 original size:14 final size:14
Alignment explanation
Indices: 739845--739884 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
739835 AAGAATAAAA
*
739845 AATAAAATTAAAGT
1 AATAAAATTAAAGG
739859 AATAAAATTAAAGG
1 AATAAAATTAAAGG
* *
739873 ATTGAAATTAAA
1 AATAAAATTAAA
739885 CTAAATTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.28
Consensus pattern (14 bp):
AATAAAATTAAAGG
Found at i:739912 original size:21 final size:21
Alignment explanation
Indices: 739877--739920 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
739867 TAAAGGATTG
*
739877 AAATTAAACTAAATTAAAAGGC
1 AAATCAAACTAAATT-AAAGGC
739899 AAATCAAA-TAAATTAAAGGC
1 AAATCAAACTAAATTAAAGGC
739919 AA
1 AA
739921 TTAATAGACA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 8 0.38
21 6 0.29
22 7 0.33
ACGTcount: A:0.61, C:0.09, G:0.09, T:0.20
Consensus pattern (21 bp):
AAATCAAACTAAATTAAAGGC
Found at i:740073 original size:18 final size:18
Alignment explanation
Indices: 740052--740086 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
740042 AAAGCTGGAA
*
740052 AATAAAATATTAAAACAT
1 AATAAAATATAAAAACAT
740070 AATAAAATATAAAAACA
1 AATAAAATATAAAAACA
740087 GTGAACAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.23
Consensus pattern (18 bp):
AATAAAATATAAAAACAT
Found at i:741601 original size:19 final size:18
Alignment explanation
Indices: 741561--741602 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
741551 TTAAATTTTA
*
741561 TAAA-TTTAAAATTAATT
1 TAAATTTTAAAATGAATT
*
741578 AAAATTTTAAATATGAATT
1 TAAATTTTAAA-ATGAATT
741597 TAAATT
1 TAAATT
741603 GACTCAAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 3 0.15
18 6 0.30
19 11 0.55
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (18 bp):
TAAATTTTAAAATGAATT
Found at i:743951 original size:20 final size:19
Alignment explanation
Indices: 743927--743981 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 19
743917 AATCAGTTTC
*
743927 CAAAATCGCAACGCGAATA
1 CAAAATCGCAACGCGAACA
*
743946 TTAAAATCGCAACGCGAACA
1 -CAAAATCGCAACGCGAACA
743966 CATAAATCGCAACGCG
1 CA-AAATCGCAACGCG
743982 TATCCGTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
19 1 0.03
20 30 0.97
ACGTcount: A:0.44, C:0.27, G:0.16, T:0.13
Consensus pattern (19 bp):
CAAAATCGCAACGCGAACA
Found at i:743991 original size:20 final size:20
Alignment explanation
Indices: 743949--744158 Score: 228
Period size: 20 Copynumber: 10.5 Consensus size: 20
743939 GCGAATATTA
* *
743949 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
743969 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
743989 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
744009 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
744029 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
744049 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
744069 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
744089 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
744109 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
744129 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
744149 AAATCACAAC
1 AAATCGCAAC
744159 ACTGAAATTT
Statistics
Matches: 162, Mismatches: 23, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
19 1 0.01
20 159 0.98
21 2 0.01
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:744878 original size:24 final size:24
Alignment explanation
Indices: 744839--744885 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
744829 AAATTTGGTC
744839 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
744863 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
744886 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:745077 original size:12 final size:12
Alignment explanation
Indices: 745060--745084 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
745050 ATATAATCCT
745060 GAAGAAGAAAAA
1 GAAGAAGAAAAA
745072 GAAGAAGAAAAA
1 GAAGAAGAAAAA
745084 G
1 G
745085 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:747459 original size:33 final size:33
Alignment explanation
Indices: 747364--747675 Score: 257
Period size: 33 Copynumber: 9.2 Consensus size: 33
747354 CGGAAATTAC
747364 AATCGCAACGAGAGAATCGCAATGCGAAATG-A
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAA
* *
747396 AATCCCAAC-ATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAACGA-GAGAATCGCAATGC-GAAATGAA
747430 AATCGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAA
* * * * *
747463 AATCGCAATGCGA-AAT-GAAAAT-CGCAACGAGA
1 AATCGCAACGAGAGAATCG-CAATGCGAAATGA-A
*
747495 GAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 -AATCGCAA--CG--A-GAGAATCGCAATGCGAAATGAA
747534 AATCGCAACGAGAGAATCGCAATGCGAAATG-A
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAA
* * * * *
747566 AATCGCAATGCGA-AAT-GAAAAT-CGCAACGAGA
1 AATCGCAACGAGAGAATCG-CAATGCGAAATGA-A
*
747598 GAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 -AATCGCAA--CG--A-GAGAATCGCAATGCGAAATGAA
*
747637 AATCGCAACGAGAGAATCGCAATGCGAAATTAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAA
747670 AA-CGCA
1 AATCGCA
747676 TTGCGATTCT
Statistics
Matches: 226, Mismatches: 27, Indels: 54
0.74 0.09 0.18
Matches are distributed among these distances:
30 6 0.03
31 14 0.06
32 45 0.20
33 82 0.36
34 24 0.11
35 3 0.01
36 4 0.02
38 20 0.09
39 14 0.06
40 14 0.06
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.13
Consensus pattern (33 bp):
AATCGCAACGAGAGAATCGCAATGCGAAATGAA
Found at i:747481 original size:52 final size:52
Alignment explanation
Indices: 747405--747681 Score: 513
Period size: 52 Copynumber: 5.3 Consensus size: 52
747395 AAATCCCAAC
747405 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
747458 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
747510 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
747562 ATG-AAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
747613 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
* *
747665 ATTAAAA-CGCATTGCGA
1 ATGAAAATCGCAATGCGA
747682 TTCTCTCGTT
Statistics
Matches: 221, Mismatches: 2, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
51 60 0.27
52 145 0.66
53 16 0.07
ACGTcount: A:0.45, C:0.17, G:0.23, T:0.14
Consensus pattern (52 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
Found at i:747553 original size:14 final size:15
Alignment explanation
Indices: 747430--747663 Score: 73
Period size: 19 Copynumber: 13.8 Consensus size: 15
747420 CGGAAATGAA
747430 AATCGCAA-CGAGAG
1 AATCGCAAGCGAGAG
*
747444 AATCGCAATGCGAAATGAA
1 AATCGCAA-GCG--A-GAG
*
747463 AATCGCAATGCGAAATGAA
1 AATCGCAA-GCG--A-GAG
747482 AATCGCAA-CGAGAG
1 AATCGCAAGCGAGAG
*
747496 AATCGCAATGCGAAATGAA
1 AATCGCAA-GCG--A-GAG
*
747515 AATCGCAATGCGAAATGAA
1 AATCGCAA-GCG--A-GAG
747534 AATCGCAA-CGAGAG
1 AATCGCAAGCGAGAG
*
747548 AATCGCAATGCGAAATG
1 AATCGCAA-GCGAGA-G
*
747565 AAATCGCAATGCGAAATGAA
1 -AATCGCAA-GCG--A-GAG
747585 AATCGCAA-CGAGAG
1 AATCGCAAGCGAGAG
*
747599 AATCGCAATGCGAAATGAA
1 AATCGCAA-GCG--A-GAG
*
747618 AATCGCAATGCGAAATGAA
1 AATCGCAA-GCG--A-GAG
747637 AATCGCAA-CGAGAG
1 AATCGCAAGCGAGAG
747651 AATCGCAATGCGA
1 AATCGCAA-GCGA
747664 AATTAAAACG
Statistics
Matches: 186, Mismatches: 10, Indels: 46
0.77 0.04 0.19
Matches are distributed among these distances:
14 48 0.26
15 4 0.02
16 13 0.07
17 9 0.05
18 15 0.08
19 95 0.51
20 1 0.01
21 1 0.01
ACGTcount: A:0.45, C:0.18, G:0.24, T:0.13
Consensus pattern (15 bp):
AATCGCAAGCGAGAG
Found at i:747606 original size:103 final size:103
Alignment explanation
Indices: 747405--747681 Score: 509
Period size: 103 Copynumber: 2.7 Consensus size: 103
747395 AAATCCCAAC
747405 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATG-AAATCGCA
747470 ATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
64 ATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
747510 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAATCGCAAT
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAATCGCAAT
747575 GCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
66 GCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
* * *
747613 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATTAAAACGCATT
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAATCGCAAT
747678 GCGA
66 GCGA
747682 TTCTCTCGTT
Statistics
Matches: 169, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
103 114 0.67
104 39 0.23
105 16 0.09
ACGTcount: A:0.45, C:0.17, G:0.23, T:0.14
Consensus pattern (103 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAATCGCAAT
GCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
Found at i:747776 original size:19 final size:19
Alignment explanation
Indices: 747690--747768 Score: 105
Period size: 19 Copynumber: 4.4 Consensus size: 19
747680 GATTCTCTCG
747690 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
747710 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
747729 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
747743 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
747762 TTGCGAT
1 TTGCGAT
747769 AGTCATTTTT
Statistics
Matches: 52, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
14 6 0.12
16 7 0.13
17 7 0.13
19 17 0.33
20 15 0.29
ACGTcount: A:0.14, C:0.23, G:0.18, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:747894 original size:14 final size:14
Alignment explanation
Indices: 747875--747911 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
747865 CATCAATTAC
747875 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
747889 ACAAATCATCTTTT
1 ACAAATCAACTTTT
747903 ACAAATCAA
1 ACAAATCAA
747912 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:749907 original size:14 final size:14
Alignment explanation
Indices: 749888--749944 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
749878 GCGAAATGAA
*
749888 AATCGCAACGACAG
1 AATCGCAACGAAAG
749902 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
749919 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
749935 AATCGCAACG
1 AATCGCAACG
749945 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:749915 original size:33 final size:33
Alignment explanation
Indices: 749869--749961 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
749859 GCGAAACCAA
*
749869 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
749902 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
749935 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
749962 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:749926 original size:19 final size:19
Alignment explanation
Indices: 749832--749966 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
749822 TAGTTTACTT
* *
749832 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
749852 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
749871 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
749890 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
749904 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
749923 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
749937 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
749956 TCGCAATGCGA
1 TCGCAACGCGA
749967 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:749984 original size:19 final size:19
Alignment explanation
Indices: 749962--750090 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
749952 AAAATCGCAA
749962 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
749981 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
749995 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
750014 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
750028 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
750047 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
750066 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
750086 TGCGA
1 TGCGA
750091 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:750004 original size:33 final size:33
Alignment explanation
Indices: 749962--750053 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
749952 AAAATCGCAA
749962 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
749995 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
750028 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
750054 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:750254 original size:93 final size:93
Alignment explanation
Indices: 750138--750513 Score: 736
Period size: 93 Copynumber: 4.1 Consensus size: 93
750128 ATGGATTGCA
750138 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
750202 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
750230 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
750295 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
750323 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
750388 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
750416 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
750481 TAGCAGAATTGGCAGCAACCGAATAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
750509 TTACT
1 TTACT
750514 AAGCAATCTA
Statistics
Matches: 282, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
92 4 0.01
93 278 0.99
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:752234 original size:14 final size:14
Alignment explanation
Indices: 752215--752303 Score: 79
Period size: 14 Copynumber: 5.7 Consensus size: 14
752205 TTGAAATGAA
752215 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
752229 AATCGCAACGCGAAATGAC
1 AATCGCAA--CG--A-GAG
752248 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
752262 AATCGCAACGCGAAATG
1 AATCGCAA--CGAGA-G
752279 AAATCGCAACGAGAG
1 -AATCGCAACGAGAG
752294 AATCGCAACG
1 AATCGCAACG
752304 CGAAATGAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 18
0.74 0.05 0.21
Matches are distributed among these distances:
14 28 0.45
15 2 0.03
16 10 0.16
17 3 0.05
18 9 0.15
19 10 0.16
ACGTcount: A:0.43, C:0.24, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:752289 original size:32 final size:33
Alignment explanation
Indices: 752207--752320 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
752197 TCTTTTGGTT
752207 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
752240 GAAATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
752273 GAAATG-AAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
752305 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
752321 TGCGATTTTG
Statistics
Matches: 78, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
32 31 0.40
33 47 0.60
ACGTcount: A:0.46, C:0.21, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:752356 original size:14 final size:14
Alignment explanation
Indices: 752337--752393 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
752327 TTTGGTTTCG
752337 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
752351 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
752370 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
752384 CGTTGCGATT
1 CGTTGCGATT
752394 TTCATTTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:752369 original size:33 final size:33
Alignment explanation
Indices: 752321--752401 Score: 144
Period size: 33 Copynumber: 2.5 Consensus size: 33
752311 AAAATCGCAA
**
752321 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
752354 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
752387 TGCGATTTTCATTTC
1 TGCGATTTTCATTTC
752402 TCTCGTTGCG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.09, C:0.22, G:0.22, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:752404 original size:21 final size:21
Alignment explanation
Indices: 752378--752453 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
752368 CGCGTTGCGA
752378 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
752399 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
752419 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
*
752440 TTATCTCGTTGCGA
1 TTCTCTCGTTGCGA
752454 CTCTTCTGCA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 17 0.36
21 30 0.64
ACGTcount: A:0.12, C:0.25, G:0.17, T:0.46
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:752434 original size:41 final size:41
Alignment explanation
Indices: 752377--752454 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
752367 TCGCGTTGCG
*
752377 ATTCTCTCGTTGCGATTTTCATTTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
752418 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
752455 TCTTCTGCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.13, C:0.26, G:0.17, T:0.45
Consensus pattern (41 bp):
ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
Found at i:752575 original size:33 final size:32
Alignment explanation
Indices: 752533--752602 Score: 104
Period size: 33 Copynumber: 2.2 Consensus size: 32
752523 AATACTAACT
*
752533 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCG-AA
* *
752566 TGAAAATCGCAACGACAGAATCGTAACGCGAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAA
752598 TGAAA
1 TGAAA
752603 TCTAAGTGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 7 0.21
33 27 0.79
ACGTcount: A:0.47, C:0.19, G:0.23, T:0.11
Consensus pattern (32 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAA
Found at i:752835 original size:22 final size:22
Alignment explanation
Indices: 752783--752837 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
752773 TGGTTGTGAG
**
752783 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
752805 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
752827 GGATTTCTTCG
1 GGATTTCTTCG
752838 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:753171 original size:60 final size:60
Alignment explanation
Indices: 752984--753177 Score: 262
Period size: 60 Copynumber: 3.2 Consensus size: 60
752974 CTTTAAATAT
**
752984 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * ** *
753045 CGCGTTGCGATATACGGATACGCATTGCGATTTACCTATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
753105 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
753165 CGCGTTGCGATTT
1 CGCGTTGCGATTT
753178 TGGAAAATCG
Statistics
Matches: 114, Mismatches: 19, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
60 86 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:753178 original size:20 final size:20
Alignment explanation
Indices: 752984--753177 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
752974 CTTTAAATAT
752984 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
753004 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
753026 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
753045 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
753065 CGCATTGCGATTTACCTATA
1 CGCGTTGCGATTTACGGATA
753085 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
753105 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
753125 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
753145 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
753165 CGCGTTGCGATTT
1 CGCGTTGCGATTT
753178 TGGAAAATCG
Statistics
Matches: 147, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 128 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:753194 original size:21 final size:21
Alignment explanation
Indices: 753164--753246 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
753154 ATTTTCATAT
*
753164 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
753185 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
753206 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
753227 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
753247 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:753237 original size:42 final size:43
Alignment explanation
Indices: 753144--753242 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
753134 ATTTATGTGT
* *
753144 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
753185 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
753227 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
753243 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:753676 original size:9 final size:9
Alignment explanation
Indices: 753619--753695 Score: 52
Period size: 9 Copynumber: 8.4 Consensus size: 9
753609 ATTTTTATCC
753619 ATATTATTT
1 ATATTATTT
*
753628 TTATT-TTCT
1 ATATTATT-T
*
753637 ATATTATAT
1 ATATTATTT
753646 ATA-T-TTT
1 ATATTATTT
* *
753653 ATGTTATTA
1 ATATTATTT
*
753662 ACATTATTT
1 ATATTATTT
753671 ATATTATTGAT
1 ATATTATT--T
753682 ATATTCATTT
1 ATATT-ATTT
753692 ATAT
1 ATAT
753696 ATACTTTTAT
Statistics
Matches: 51, Mismatches: 10, Indels: 13
0.69 0.14 0.18
Matches are distributed among these distances:
7 4 0.08
8 4 0.08
9 28 0.55
10 6 0.12
11 6 0.12
12 3 0.06
ACGTcount: A:0.32, C:0.04, G:0.03, T:0.61
Consensus pattern (9 bp):
ATATTATTT
Found at i:757273 original size:22 final size:22
Alignment explanation
Indices: 757231--757274 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
757221 CTTAGACATC
*
757231 AAAAAAAAACAGAAGAGACCCA
1 AAAAAAAAAAAGAAGAGACCCA
* *
757253 AAAAAAAAAAAGGAGATACCCA
1 AAAAAAAAAAAGAAGAGACCCA
757275 GAATCATTCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.68, C:0.16, G:0.14, T:0.02
Consensus pattern (22 bp):
AAAAAAAAAAAGAAGAGACCCA
Found at i:760148 original size:16 final size:16
Alignment explanation
Indices: 760122--760159 Score: 67
Period size: 16 Copynumber: 2.3 Consensus size: 16
760112 TCTACTAAAG
760122 CATGATTGGGTAGATAT
1 CATG-TTGGGTAGATAT
760139 CATGTTGGGTAGATAT
1 CATGTTGGGTAGATAT
760155 CATGT
1 CATGT
760160 GAATAAGGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.26, C:0.08, G:0.29, T:0.37
Consensus pattern (16 bp):
CATGTTGGGTAGATAT
Done.