Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008124.1 Hibiscus syriacus cultivar Beakdansim tig00110678_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: 3296903
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 19
Found at i:637040 original size:25 final size:25
Alignment explanation
Indices: 637006--637099 Score: 179
Period size: 25 Copynumber: 3.8 Consensus size: 25
636996 GAGTAGAGGG
*
637006 TCTACGCGGTCATTCGGGACAATAT
1 TCTACGCGGTCCTTCGGGACAATAT
637031 TCTACGCGGTCCTTCGGGACAATAT
1 TCTACGCGGTCCTTCGGGACAATAT
637056 TCTACGCGGTCCTTCGGGACAATAT
1 TCTACGCGGTCCTTCGGGACAATAT
637081 TCTACGCGGTCCTTCGGGA
1 TCTACGCGGTCCTTCGGGA
637100 TATATATATA
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
25 68 1.00
ACGTcount: A:0.19, C:0.28, G:0.26, T:0.28
Consensus pattern (25 bp):
TCTACGCGGTCCTTCGGGACAATAT
Found at i:640560 original size:21 final size:21
Alignment explanation
Indices: 640534--640578 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
640524 GATTTCTGGG
* *
640534 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
640555 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
640576 CAA
1 CAA
640579 ACGAACAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:642282 original size:25 final size:25
Alignment explanation
Indices: 642248--642316 Score: 129
Period size: 25 Copynumber: 2.8 Consensus size: 25
642238 GAGTAGAGGG
642248 TCTACGCGGTCCTTCGGGACAATAT
1 TCTACGCGGTCCTTCGGGACAATAT
*
642273 TCTACGCGGTCCTTCGGAACAATAT
1 TCTACGCGGTCCTTCGGGACAATAT
642298 TCTACGCGGTCCTTCGGGA
1 TCTACGCGGTCCTTCGGGA
642317 TATATATATA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.19, C:0.29, G:0.25, T:0.28
Consensus pattern (25 bp):
TCTACGCGGTCCTTCGGGACAATAT
Found at i:642475 original size:23 final size:23
Alignment explanation
Indices: 642431--642475 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
642421 ATCATTATAT
*
642431 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
* *
642454 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
642476 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:648644 original size:23 final size:22
Alignment explanation
Indices: 648614--648719 Score: 81
Period size: 23 Copynumber: 4.7 Consensus size: 22
648604 GAGTCAAGGG
648614 TTCTACGTGGTCATTCGAGAAAA
1 TTCTACGTGGTCATTCG-GAAAA
* *
648637 TTCTACGTGGTCCTT-TGAAACA
1 TTCTACGTGGTCATTCGGAAA-A
* *
648659 TTTCTATGTGGTCATTCGGGAAA
1 -TTCTACGTGGTCATTCGGAAAA
* * * *
648682 TATCTATGTGGTCCTTCTGGACAT
1 T-TCTACGTGGTCATTC-GGAAAA
648706 TTCTACGTGG-CATT
1 TTCTACGTGGTCATT
648720 TTGGTGCATA
Statistics
Matches: 66, Mismatches: 12, Indels: 11
0.74 0.13 0.12
Matches are distributed among these distances:
21 4 0.06
22 5 0.08
23 50 0.76
24 7 0.11
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.38
Consensus pattern (22 bp):
TTCTACGTGGTCATTCGGAAAA
Found at i:648693 original size:46 final size:46
Alignment explanation
Indices: 648614--648719 Score: 137
Period size: 46 Copynumber: 2.3 Consensus size: 46
648604 GAGTCAAGGG
648614 TTCTACGTGGTCATTCGAGAAAATTCTACGTGGTCCTT-TGAAACAT
1 TTCTACGTGGTCATTCGAGAAAATTCTACGTGGTCCTTCTG-AACAT
* * * *
648660 TTCTATGTGGTCATTCG-GGAAATATCTATGTGGTCCTTCTGGACAT
1 TTCTACGTGGTCATTCGAGAAAAT-TCTACGTGGTCCTTCTGAACAT
648706 TTCTACGTGG-CATT
1 TTCTACGTGGTCATT
648720 TTGGTGCATA
Statistics
Matches: 53, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
45 9 0.17
46 42 0.79
47 2 0.04
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.38
Consensus pattern (46 bp):
TTCTACGTGGTCATTCGAGAAAATTCTACGTGGTCCTTCTGAACAT
Found at i:649960 original size:19 final size:19
Alignment explanation
Indices: 649908--649960 Score: 88
Period size: 19 Copynumber: 2.8 Consensus size: 19
649898 GGACTAATCG
*
649908 GTGCACAAATGGTTTCTCA
1 GTGCACAAATGGGTTCTCA
*
649927 GTGCACAAATAGGTTCTCA
1 GTGCACAAATGGGTTCTCA
649946 GTGCACAAATGGGTT
1 GTGCACAAATGGGTT
649961 ATGGTAATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (19 bp):
GTGCACAAATGGGTTCTCA
Found at i:659354 original size:195 final size:195
Alignment explanation
Indices: 659022--659411 Score: 762
Period size: 195 Copynumber: 2.0 Consensus size: 195
659012 CTTGAGTGTA
659022 CAAACAATGGAAAACTCAAAATGACTTCACTTAGGGACTAAAACAGAAGGCTCAAAAATAGAGAG
1 CAAACAATGGAAAACTCAAAATGACTTCACTTAGGGACTAAAACAGAAGGCTCAAAAATAGAGAG
659087 GTAAATCTAGAATTCAGAAAATATGAAAAGGGGCCTAAAACTGGATTTTACCCTAAAGCTTCAGT
66 GTAAATCTAGAATTCAGAAAATATGAAAAGGGGCCTAAAACTGGATTTTACCCTAAAGCTTCAGT
659152 GGCTAAAAAGTAATTTACCCAAATTCTATAATATAAAACCTACACTTAACCTAAGCAAATCACGT
131 GGCTAAAAAGTAATTTACCCAAATTCTATAATATAAAACCTACACTTAACCTAAGCAAATCACGT
*
659217 CAAACAATGGAAAACTCAAAATGACTTCACTTAGGGACTAAAATAGAAGGCTCAAAAATAGAGAG
1 CAAACAATGGAAAACTCAAAATGACTTCACTTAGGGACTAAAACAGAAGGCTCAAAAATAGAGAG
*
659282 GTAAATCTAGAATTCAGAAAATATGAAAAGGGGCTTAAAACTGGATTTTACCCTAAAGCTTCAGT
66 GTAAATCTAGAATTCAGAAAATATGAAAAGGGGCCTAAAACTGGATTTTACCCTAAAGCTTCAGT
659347 GGCTAAAAAGTAATTTACCCAAATTCTATAATATAAAACCTACACTTAACCTAAGCAAATCACGT
131 GGCTAAAAAGTAATTTACCCAAATTCTATAATATAAAACCTACACTTAACCTAAGCAAATCACGT
659412 ACAGGAAAAC
Statistics
Matches: 193, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
195 193 1.00
ACGTcount: A:0.45, C:0.17, G:0.15, T:0.23
Consensus pattern (195 bp):
CAAACAATGGAAAACTCAAAATGACTTCACTTAGGGACTAAAACAGAAGGCTCAAAAATAGAGAG
GTAAATCTAGAATTCAGAAAATATGAAAAGGGGCCTAAAACTGGATTTTACCCTAAAGCTTCAGT
GGCTAAAAAGTAATTTACCCAAATTCTATAATATAAAACCTACACTTAACCTAAGCAAATCACGT
Found at i:660196 original size:23 final size:21
Alignment explanation
Indices: 660148--660196 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
660138 CTCCCCTCTT
* *
660148 TTTGTTAACTCCTGATAACGC
1 TTTGTTAACCCCTCATAACGC
660169 -TTGTTAACCCCTCATAATCGTC
1 TTTGTTAACCCCTCATAA-CG-C
660191 TTTGTT
1 TTTGTT
660197 TTCCAGGGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 15 0.65
21 2 0.09
22 1 0.04
23 5 0.22
ACGTcount: A:0.20, C:0.24, G:0.12, T:0.43
Consensus pattern (21 bp):
TTTGTTAACCCCTCATAACGC
Found at i:660708 original size:37 final size:37
Alignment explanation
Indices: 660658--660770 Score: 138
Period size: 37 Copynumber: 3.0 Consensus size: 37
660648 AAAATCGATC
*
660658 TTGATTTTCTTCACTACTTTTCCGTGAAGGCTTAAGA
1 TTGATTTGCTTCACTACTTTTCCGTGAAGGCTTAAGA
* ** *
660695 TTGATTTGCTTCACTACTCTTCTATGAAGGCTTAATA
1 TTGATTTGCTTCACTACTTTTCCGTGAAGGCTTAAGA
* *
660732 TTTATTTTGCTTAACTA-TTCTTCCGTGAAGGCTTAAGA
1 TTGA-TTTGCTTCACTACTT-TTCCGTGAAGGCTTAAGA
660770 T
1 T
660771 GGCCCGGAGG
Statistics
Matches: 63, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
37 36 0.57
38 27 0.43
ACGTcount: A:0.23, C:0.18, G:0.15, T:0.44
Consensus pattern (37 bp):
TTGATTTGCTTCACTACTTTTCCGTGAAGGCTTAAGA
Found at i:660889 original size:42 final size:42
Alignment explanation
Indices: 660806--660905 Score: 146
Period size: 42 Copynumber: 2.4 Consensus size: 42
660796 CGGAAGTCTG
*
660806 ACAGATGACTCGAAGGATTTAATCATCATGCTCAAAAGACTT
1 ACAGATGACCCGAAGGATTTAATCATCATGCTCAAAAGACTT
**
660848 ACAGATGACCCGAAGGATTTAATCATCATGCTTGAAAGACTT
1 ACAGATGACCCGAAGGATTTAATCATCATGCTCAAAAGACTT
* * *
660890 ACTGATGGCCCAAAGG
1 ACAGATGACCCGAAGG
660906 TCTTACTAAG
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (42 bp):
ACAGATGACCCGAAGGATTTAATCATCATGCTCAAAAGACTT
Found at i:661139 original size:42 final size:41
Alignment explanation
Indices: 661041--661147 Score: 99
Period size: 42 Copynumber: 2.6 Consensus size: 41
661031 GCCCAAAGGT
* *
661041 CTTA-TGGATGGCCCGAAGGACTTATAATCTTGCTCGAAAGG
1 CTTACTGG-TGGCCCGAAGGACTTATAATCATGCTCGAAAGA
*** * * * *
661082 CTTACAAATGACCCGAAGGATTTAATCATCATGCTTGAAAGA
1 CTTACTGGTGGCCCGAAGGACTT-ATAATCATGCTCGAAAGA
*
661124 CTTACTGGTGGCCCGAATGACTTA
1 CTTACTGGTGGCCCGAAGGACTTA
661148 CCAAGTAAAA
Statistics
Matches: 49, Mismatches: 15, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
41 18 0.37
42 31 0.63
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (41 bp):
CTTACTGGTGGCCCGAAGGACTTATAATCATGCTCGAAAGA
Found at i:661248 original size:237 final size:237
Alignment explanation
Indices: 660816--661481 Score: 917
Period size: 237 Copynumber: 2.8 Consensus size: 237
660806 ACAGATGACT
* * *
660816 CGAAGGATTTAATCATCATGCTCAAAAGACTTACAGATGACCCGAAGGATTTAATCATCATGCTT
1 CGAAGGACTT-ATCATCTTGCTCGAAAGACTTACAGATGACCCGAAGGATTTAATCATCATGCTT
* * *
660881 GAAAGACTTACTGATGGCCCAAAGGTCTTACTAAGTAAGAAACTTTAGAAATCACTTTCTTACTT
65 GAAAGACTTACTGATGGCCC-AATGACTTACTAAGTAAGAAACTTTGGAAATCACTTTCTTACTT
* *
660946 TTCAAAAATTTCATCTTC-AAAAAACATTAAATGAGAAACTTTGAAAATCACTTTCTCATTTTTC
129 TTCAAAAATTTCATTTTCAAAAAAACATTAAATGAGAAACTTTGAAAATCACTTTCTCAATTTTC
* *
661010 AAATTCATGTAAAAATATCATGCCCAAAGGTCTTATGGATGGCC
194 AAATTCATGCAAAAACATCATGCCCAAAGGTCTTATGGATGGCC
* * *
661054 CGAAGGACTTATAATCTTGCTCGAAAGGCTTACAAATGACCCGAAGGATTTAATCATCATGCTTG
1 CGAAGGACTTATCATCTTGCTCGAAAGACTTACAGATGACCCGAAGGATTTAATCATCATGCTTG
* * * *
661119 AAAGACTTACTGGTGGCCCGAATGACTTACCAAGTAAAAAACTTTGGAAATCATTTTCTTACTTT
66 AAAGACTTACTGATGGCCC-AATGACTTACTAAGTAAGAAACTTTGGAAATCACTTTCTTACTTT
* * * *
661184 TCAAATATTTCATTTTCAAAAAAATATTAAATTAGAAACTTTGAAAATCGCTTTCT-AATTTTCA
130 TCAAAAATTTCATTTTCAAAAAAACATTAAATGAGAAACTTTGAAAATCACTTTCTCAATTTTCA
* * * *
661248 AATTCATGCGAAAGCATCCTGCCCGAAGGTCTTATGGATGGCC
195 AATTCATGCAAAAACATCATGCCCAAAGGTCTTATGGATGGCC
* * * * * * *
661291 CAAAGTACTTATCATCTTACTCGAAAGACTTATAGATGACCCGAAGGATTTAATCTTTATGCTCG
1 CGAAGGACTTATCATCTTGCTCGAAAGACTTACAGATGACCCGAAGGATTTAATCATCATGCTTG
*
661356 AAAGACTTACTGATGG-CCAATGACTTACTAAGTAAGAAACTTTGGAAATCACATTCTTACTTTT
66 AAAGACTTACTGATGGCCCAATGACTTACTAAGTAAGAAACTTTGGAAATCACTTTCTTACTTTT
**** * *
661420 CAAAAATTTCATTTTCAAAAAGGGTTTAAATGAGAAACTTT-AGAAATCATTTTCTCATTTTT
131 CAAAAATTTCATTTTCAAAAAAACATTAAATGAGAAACTTTGA-AAATCACTTTCTCAATTTT
661482 TGAAAATCAC
Statistics
Matches: 375, Mismatches: 50, Indels: 8
0.87 0.12 0.02
Matches are distributed among these distances:
234 1 0.00
235 87 0.23
236 7 0.02
237 236 0.63
238 44 0.12
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (237 bp):
CGAAGGACTTATCATCTTGCTCGAAAGACTTACAGATGACCCGAAGGATTTAATCATCATGCTTG
AAAGACTTACTGATGGCCCAATGACTTACTAAGTAAGAAACTTTGGAAATCACTTTCTTACTTTT
CAAAAATTTCATTTTCAAAAAAACATTAAATGAGAAACTTTGAAAATCACTTTCTCAATTTTCAA
ATTCATGCAAAAACATCATGCCCAAAGGTCTTATGGATGGCC
Found at i:672970 original size:23 final size:23
Alignment explanation
Indices: 672928--673002 Score: 109
Period size: 23 Copynumber: 3.3 Consensus size: 23
672918 CATCGAAGTG
*
672928 CCACATA--TTTGTCCCAAAGGA
1 CCACATAGTTTTGTCCCGAAGGA
* *
672949 CCATATAGTTTTGTCTCGAAGGA
1 CCACATAGTTTTGTCCCGAAGGA
672972 CCACATAGTTTTGTCCCGAAGGA
1 CCACATAGTTTTGTCCCGAAGGA
672995 CCACATAG
1 CCACATAG
673003 AACCCTCAAC
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
21 6 0.13
23 41 0.87
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (23 bp):
CCACATAGTTTTGTCCCGAAGGA
Found at i:677916 original size:2 final size:2
Alignment explanation
Indices: 677911--677942 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
677901 ATCTATTAGT
677911 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
677943 ATTCTTTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:678943 original size:32 final size:30
Alignment explanation
Indices: 678894--678986 Score: 89
Period size: 32 Copynumber: 3.0 Consensus size: 30
678884 TAATTCTAAA
* * *
678894 AGTTTGGTAAACTTAATGATAATTTCGTAAT
1 AGTTTGATAAATTTAATGAT-ATTTTGTAAT
* *
678925 A-TTCTGATATATTCTAATGACTATTTTGTACT
1 AGTT-TGATAAATT-TAATGA-TATTTTGTAAT
678957 AGTTTGATAAATTTAATGATTATTTTGTAA
1 AGTTTGATAAATTTAATGA-TATTTTGTAA
678987 CCGTTCAAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
30 2 0.04
31 22 0.44
32 23 0.46
33 3 0.06
ACGTcount: A:0.33, C:0.06, G:0.13, T:0.47
Consensus pattern (30 bp):
AGTTTGATAAATTTAATGATATTTTGTAAT
Found at i:682914 original size:16 final size:16
Alignment explanation
Indices: 682903--682944 Score: 84
Period size: 16 Copynumber: 2.6 Consensus size: 16
682893 TCCCTCTTCG
682903 ATTTTTTCCCTCTCTA
1 ATTTTTTCCCTCTCTA
682919 ATTTTTTCCCTCTCTA
1 ATTTTTTCCCTCTCTA
682935 ATTTTTTCCC
1 ATTTTTTCCC
682945 CGAATCCTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.12, C:0.31, G:0.00, T:0.57
Consensus pattern (16 bp):
ATTTTTTCCCTCTCTA
Found at i:683460 original size:3 final size:3
Alignment explanation
Indices: 683452--683483 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
683442 ATAATTTGTT
683452 ATA ATA ATA ATA ATA ATA ATA ATA A-A ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
683484 CAAAAAGAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:683712 original size:31 final size:31
Alignment explanation
Indices: 683637--683717 Score: 110
Period size: 32 Copynumber: 2.6 Consensus size: 31
683627 TTTGGTAATC
*
683637 TTAATGATTATTTCGTAATATTCTGATAAAT
1 TTAATGATTATTTTGTAATATTCTGATAAAT
* *
683668 TCTAACGATTATTTTGTACTAGTT-TGATAAAT
1 T-TAATGATTATTTTGTAATA-TTCTGATAAAT
683700 TTAATGATTATTTTGTAA
1 TTAATGATTATTTTGTAA
683718 CCGGTCAAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
31 16 0.37
32 25 0.58
33 2 0.05
ACGTcount: A:0.33, C:0.06, G:0.11, T:0.49
Consensus pattern (31 bp):
TTAATGATTATTTTGTAATATTCTGATAAAT
Found at i:688100 original size:56 final size:57
Alignment explanation
Indices: 687978--688103 Score: 182
Period size: 56 Copynumber: 2.2 Consensus size: 57
687968 AAAACGCCTT
*
687978 GTTAAAGATCTCTAAATCTATATGAAAGAAAAAAAATACATTAAAAAAAAATATCTC
1 GTTAAAGATCTCTAAATCTATATAAAAGAAAAAAAATACATTAAAAAAAAATATCTC
* * * * * *
688035 GTTAAAGATCTCTAAATTTATATAAAAG-AAAAGAGTACATTAAGAAAGAATGTCTC
1 GTTAAAGATCTCTAAATCTATATAAAAGAAAAAAAATACATTAAAAAAAAATATCTC
688091 GTTAAAGATCTCT
1 GTTAAAGATCTCT
688104 TTTTAACGAG
Statistics
Matches: 62, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
56 36 0.58
57 26 0.42
ACGTcount: A:0.50, C:0.10, G:0.11, T:0.29
Consensus pattern (57 bp):
GTTAAAGATCTCTAAATCTATATAAAAGAAAAAAAATACATTAAAAAAAAATATCTC
Found at i:689378 original size:2 final size:2
Alignment explanation
Indices: 689371--689400 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
689361 ATATGAAATA
689371 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
689401 TATTGTTAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:695269 original size:3 final size:3
Alignment explanation
Indices: 695258--695322 Score: 80
Period size: 3 Copynumber: 21.3 Consensus size: 3
695248 CCTACAAAAA
*
695258 AAT ATT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAAT AAAT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT -AAT -AAT
695306 AAT AAT -AT AAT AA- AAT A
1 AAT AAT AAT AAT AAT AAT A
695323 TTTTTGTAAA
Statistics
Matches: 57, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
2 4 0.07
3 42 0.74
4 11 0.19
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:699848 original size:22 final size:22
Alignment explanation
Indices: 699820--699869 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
699810 CGAAAAAGAA
*
699820 AAGAGATGAGTGGCACACCAAT
1 AAGAGATGAGCGGCACACCAAT
699842 AAGAGATGAGCGGCACACCAAT
1 AAGAGATGAGCGGCACACCAAT
699864 AAGAGA
1 AAGAGA
699870 AAACTAGATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.44, C:0.18, G:0.28, T:0.10
Consensus pattern (22 bp):
AAGAGATGAGCGGCACACCAAT
Found at i:700491 original size:19 final size:20
Alignment explanation
Indices: 700448--700485 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
700438 TTAATTTAAT
700448 TACTTAATTCAAATTACTCG
1 TACTTAATTCAAATTACTCG
*
700468 TACTTAATT-TAATTACTC
1 TACTTAATTCAAATTACTC
700486 TAACTTTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.34, C:0.18, G:0.03, T:0.45
Consensus pattern (20 bp):
TACTTAATTCAAATTACTCG
Found at i:702626 original size:2 final size:2
Alignment explanation
Indices: 702619--702693 Score: 150
Period size: 2 Copynumber: 37.5 Consensus size: 2
702609 GCATCCAAAC
702619 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
702661 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
702694 CCATTTCCTT
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 73 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:703152 original size:23 final size:23
Alignment explanation
Indices: 703126--703191 Score: 96
Period size: 23 Copynumber: 2.9 Consensus size: 23
703116 CACCACAGCT
*
703126 CGTATAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
* * *
703149 CGTAGAATTGCACCTAAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCA
703172 CGTAGAAATGCACCGAAGTG
1 CGTAGAAATGCACCGAAGTG
703192 TCATATAAGA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.32, C:0.24, G:0.26, T:0.18
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:705071 original size:2 final size:2
Alignment explanation
Indices: 705064--705102 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
705054 ATAGTAAGTA
705064 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 A
705103 GAAAAAGAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:705341 original size:2 final size:2
Alignment explanation
Indices: 705334--705400 Score: 134
Period size: 2 Copynumber: 33.5 Consensus size: 2
705324 GAACATACGC
705334 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
705376 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
705401 ACAAAATAAA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 65 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:705530 original size:24 final size:23
Alignment explanation
Indices: 705503--705557 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 23
705493 AAATAAGTAG
705503 AATAAAAGGAAATATAATAGTAAA
1 AATAAAA-GAAATATAATAGTAAA
* *
705527 AATAATAATAAATATAATAGTAAT
1 AATAA-AAGAAATATAATAGTAAA
705551 AATAAAA
1 AATAAAA
705558 ATGCAAAGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 2 0.07
24 24 0.86
25 2 0.07
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.25
Consensus pattern (23 bp):
AATAAAAGAAATATAATAGTAAA
Found at i:706183 original size:37 final size:37
Alignment explanation
Indices: 706142--706238 Score: 131
Period size: 37 Copynumber: 2.6 Consensus size: 37
706132 GGATCCTATC
* *
706142 TTTAGGAGTTTAAATCATAGTAGAACTCTATCATATT
1 TTTAGGAGTTTGAATCCTAGTAGAACTCTATCATATT
* * * *
706179 TTTAGGAGTTTGAATCCTAGCAAAATTCTATCCTATT
1 TTTAGGAGTTTGAATCCTAGTAGAACTCTATCATATT
*
706216 TTTATGAGTTTGAATCCTAGTAG
1 TTTAGGAGTTTGAATCCTAGTAG
706239 GACGAAAAGG
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 51 1.00
ACGTcount: A:0.31, C:0.12, G:0.15, T:0.41
Consensus pattern (37 bp):
TTTAGGAGTTTGAATCCTAGTAGAACTCTATCATATT
Found at i:707290 original size:106 final size:106
Alignment explanation
Indices: 706965--708549 Score: 2307
Period size: 106 Copynumber: 15.0 Consensus size: 106
706955 GCATTGTTCC
* * ** *
706965 GAGTCCAATATCCTCCG-TCGTGAAGTTGAAATTGGCTCTGGAACCGGGAAATTGTTTGTTGACA
1 GAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
* * * *
707029 ACCAGCTGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTT
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
707071 GAGTCAAATATCCTTCGCTGTGAAGTTGAAATTGACTCTG-AA-T--GAA-AT-TTTGTTAACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * * * *
707130 TCAGCCG-CCCTTTCGTCGTGAAGATGATCTTGTGTTGTCTTG
66 CCAGCGGTCCC-TTCGTCGTGAAGTTGAACTTGCGTTGTC-TG
* * *
707172 G-GTCCAAGATCCTTCGCTGAGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
707236 CCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
707277 GAGTCCAATATCCTAT-GCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTATTGACA
1 GAGTCCAATATCCT-TCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
707341 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * *
707383 GAATCCAATATCCTTCGTTGTGAAGTTGAAATTAGCTCTAAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
707448 CCAGTGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
707489 GAGTCCAATATCCTTCACTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGATAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
707554 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
707595 GAGTCCAATATCCTTCGCTGTGAAATTGAAATTGGCTCTGAAATTGTGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
707660 CCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
707701 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTATTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
707766 CCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
707807 GAGTCCAATATTCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
707872 CCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
707913 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
707978 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
708019 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATT-AGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
708083 CCAGAGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
708124 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATT-AGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
708188 CCAGAGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
708229 GAGTCCAATATCCTTCGCTGTGAATTTGAAATTGGCTCTGAAATTGGAAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * * *
708294 CTAGCGGTCCCTTCATCGTGAAGTTGAACTTGTGTTATCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
708335 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
708400 CCAGCGGTTCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * * * *
708441 TAGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCT-TCAAAATTGGAAAATT-ATTGTTGTCA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCT-GAAATTGGGAAGTTGTTTGTTGACA
* * * *
708504 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTT
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
708546 GAGT
1 GAGT
708550 GGCACGATAT
Statistics
Matches: 1348, Mismatches: 116, Indels: 31
0.90 0.08 0.02
Matches are distributed among these distances:
99 3 0.00
100 74 0.05
101 5 0.00
102 4 0.00
104 3 0.00
105 258 0.19
106 996 0.74
107 5 0.00
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.35
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:709400 original size:22 final size:22
Alignment explanation
Indices: 709374--709428 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
709364 TTGTGTTTGG
709374 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
709396 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
709418 TCAAAGGTTTG
1 TCAAAGGTTTG
709429 ATGGGGTAGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.24, C:0.13, G:0.27, T:0.36
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:710060 original size:35 final size:33
Alignment explanation
Indices: 710020--710093 Score: 87
Period size: 34 Copynumber: 2.2 Consensus size: 33
710010 TTTGCATGTG
*
710020 CTTTTTTGTCCCT-TTTTCTTTTTTTATTTTTGTTC
1 CTTTTTT-TCCCTCTTTTC-TTTTTTATTTTTG-CC
* *
710055 CTTTTTTTTCTTCTTTTCTTTTTTATTTTTGCC
1 CTTTTTTTCCCTCTTTTCTTTTTTATTTTTGCC
710088 CTTTTT
1 CTTTTT
710094 GTTCTGATTG
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
33 7 0.20
34 16 0.46
35 12 0.34
ACGTcount: A:0.03, C:0.18, G:0.04, T:0.76
Consensus pattern (33 bp):
CTTTTTTTCCCTCTTTTCTTTTTTATTTTTGCC
Found at i:710091 original size:33 final size:35
Alignment explanation
Indices: 710033--710098 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
710023 TTTTGTCCCT
* *
710033 TTTTCTTTTTTTATTTTTGTTCCTTTTTTTTCTTC
1 TTTTCTTTTTTTATTTTTGTCCCTTTTTGTTCTTC
710068 TTTTC-TTTTTTATTTTTG-CCCTTTTTGTTCT
1 TTTTCTTTTTTTATTTTTGTCCCTTTTTGTTCT
710099 GATTGAATCT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 11 0.38
34 13 0.45
35 5 0.17
ACGTcount: A:0.03, C:0.15, G:0.05, T:0.77
Consensus pattern (35 bp):
TTTTCTTTTTTTATTTTTGTCCCTTTTTGTTCTTC
Found at i:714818 original size:27 final size:28
Alignment explanation
Indices: 714789--714840 Score: 83
Period size: 25 Copynumber: 2.0 Consensus size: 28
714779 AGAGAAAGTA
714789 AAAAAATATA-ATA-ATAATA-AAATAT
1 AAAAAATATACATATATAATATAAATAT
714814 AAAAAATATACATATATAATATAAATA
1 AAAAAATATACATATATAATATAAATA
714841 AGTAGAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
25 10 0.42
26 3 0.12
27 6 0.25
28 5 0.21
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (28 bp):
AAAAAATATACATATATAATATAAATAT
Found at i:715524 original size:37 final size:37
Alignment explanation
Indices: 715483--715579 Score: 122
Period size: 37 Copynumber: 2.6 Consensus size: 37
715473 GGATCCTATC
*
715483 TTTAGGAGTTTAAATCATAGTAGAACTCTATCATATT
1 TTTAGGAGTTTGAATCATAGTAGAACTCTATCATATT
* * * * *
715520 TTTAGGAGTTTGAATCTTAGCAAAATTCTATCCTATT
1 TTTAGGAGTTTGAATCATAGTAGAACTCTATCATATT
* *
715557 TTTATGAGTTTGAATCCTAGTAG
1 TTTAGGAGTTTGAATCATAGTAG
715580 GACGAAAAGG
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 50 1.00
ACGTcount: A:0.31, C:0.11, G:0.15, T:0.42
Consensus pattern (37 bp):
TTTAGGAGTTTGAATCATAGTAGAACTCTATCATATT
Found at i:717889 original size:23 final size:23
Alignment explanation
Indices: 717859--717902 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
717849 CAAGCGAACA
717859 AACACAATAAACGAACATAAAAG
1 AACACAATAAACGAACATAAAAG
717882 AACACAATAAACGAACATAAA
1 AACACAATAAACGAACATAAA
717903 CAAACCATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.66, C:0.18, G:0.07, T:0.09
Consensus pattern (23 bp):
AACACAATAAACGAACATAAAAG
Found at i:717891 original size:13 final size:13
Alignment explanation
Indices: 717838--717898 Score: 56
Period size: 13 Copynumber: 4.8 Consensus size: 13
717828 CATTTAAATG
717838 ATAAACGAACACA
1 ATAAACGAACACA
** *
717851 AGCGAACAAACACA
1 A-TAAACGAACACA
717865 ATAAACG-A-AC-
1 ATAAACGAACACA
*
717875 ATAAAAGAACACA
1 ATAAACGAACACA
717888 ATAAACGAACA
1 ATAAACGAACA
717899 TAAACAAACC
Statistics
Matches: 36, Mismatches: 8, Indels: 8
0.69 0.15 0.15
Matches are distributed among these distances:
10 6 0.17
11 3 0.08
12 3 0.08
13 14 0.39
14 10 0.28
ACGTcount: A:0.62, C:0.21, G:0.10, T:0.07
Consensus pattern (13 bp):
ATAAACGAACACA
Found at i:722684 original size:24 final size:24
Alignment explanation
Indices: 722657--722705 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
722647 TGGTGGTCGA
722657 TTAATGGTTGT-TTGAACTTTATTT
1 TTAATGG-TGTATTGAACTTTATTT
* *
722681 TTAATGGTGTATTTAAGTTTATTT
1 TTAATGGTGTATTGAACTTTATTT
722705 T
1 T
722706 GGTTCTTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 3 0.14
24 19 0.86
ACGTcount: A:0.22, C:0.02, G:0.16, T:0.59
Consensus pattern (24 bp):
TTAATGGTGTATTGAACTTTATTT
Found at i:724825 original size:173 final size:172
Alignment explanation
Indices: 724529--724864 Score: 480
Period size: 173 Copynumber: 1.9 Consensus size: 172
724519 TTTTTTCACA
* * * *
724529 AAAAACGCCGCAATAAGTATTGATATTTAGATGCGTTTGTGTGAAAAACGTCGCAATAGGTGTTG
1 AAAAACGCCGCAATAAGTATTGATATTTAGATGCATTTGTGTCAAAAACGCCGCAATAGATGTTG
* * ** *
724594 ATATTTAGTGGCGTTTGTTATAAAAATACCGCAATAGGTGTTGATATTTATTGGCGTTTGTTATA
66 ATATTTAGTGGCGTTTGTTATAAAAACACCGCAAAAGGTGTTGATATTTAACGGCGTTTGTCATA
*
724659 AAAACGCCGCAATAGGTGTTGATATTTAGCAGCATTTGTCAT
131 AAAACGCCGCAATAGGTGTTAATATTTAGCAGCATTTGTCAT
* * *
724701 AAAAACGCTGCAATAGGTGTTGATATTTAGCA-GCATTT-T-TCAACAAACGCCGCAATAGATGT
1 AAAAACGCCGCAATAAGTATTGATATTTAG-ATGCATTTGTGTCAA-AAACGCCGCAATAGATGT
*
724763 TGATATTTAGTGGCGTTTTTTTTATAAAAACACCGCAAAAGGTGTTGATATTTAACGGCGTTTGT
64 TGATATTTAGTGGCG--TTTGTTATAAAAACACCGCAAAAGGTGTTGATATTTAACGGCGTTTGT
*
724828 CATAAAAACGTCGCAATAGGTGTTAATATTTAGCAGC
127 CATAAAAACGCCGCAATAGGTGTTAATATTTAGCAGC
724865 GTTTCTCAGA
Statistics
Matches: 145, Mismatches: 15, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
170 3 0.02
171 32 0.22
172 32 0.22
173 78 0.54
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.34
Consensus pattern (172 bp):
AAAAACGCCGCAATAAGTATTGATATTTAGATGCATTTGTGTCAAAAACGCCGCAATAGATGTTG
ATATTTAGTGGCGTTTGTTATAAAAACACCGCAAAAGGTGTTGATATTTAACGGCGTTTGTCATA
AAAACGCCGCAATAGGTGTTAATATTTAGCAGCATTTGTCAT
Found at i:724867 original size:43 final size:43
Alignment explanation
Indices: 724529--724954 Score: 374
Period size: 43 Copynumber: 9.9 Consensus size: 43
724519 TTTTTTCACA
* * *
724529 AAAAACGCCGCAATAAGTATTGATATTTAG-ATGCGTTTGT-GT
1 AAAAACGCCGCAATAGGTGTTGATATTTAGCA-GCGTTTGTCAT
* ** *
724571 GAAAAACGTCGCAATAGGTGTTGATATTTAGTGGCGTTTGTTAT
1 -AAAAACGCCGCAATAGGTGTTGATATTTAGCAGCGTTTGTCAT
** *** *
724615 AAAAATACCGCAATAGGTGTTGATATTTATTGGCGTTTGTTAT
1 AAAAACGCCGCAATAGGTGTTGATATTTAGCAGCGTTTGTCAT
*
724658 AAAAACGCCGCAATAGGTGTTGATATTTAGCAGCATTTGTCAT
1 AAAAACGCCGCAATAGGTGTTGATATTTAGCAGCGTTTGTCAT
* * *
724701 AAAAACGCTGCAATAGGTGTTGATATTTAGCAGCATTTTTCA-
1 AAAAACGCCGCAATAGGTGTTGATATTTAGCAGCGTTTGTCAT
* * ** * *
724743 ACAAACGCCGCAATAGATGTTGATATTTAGTGGCGTTTTTTTTAT
1 AAAAACGCCGCAATAGGTGTTGATATTTAGCAGCG--TTTGTCAT
* * * *
724788 AAAAACACCGCAAAAGGTGTTGATATTTAACGGCGTTTGTCAT
1 AAAAACGCCGCAATAGGTGTTGATATTTAGCAGCGTTTGTCAT
* * * *
724831 AAAAACGTCGCAATAGGTGTTAATATTTAGCAGCGTTTCTCAG
1 AAAAACGCCGCAATAGGTGTTGATATTTAGCAGCGTTTGTCAT
* * * * * * * **
724874 ACAAACACCACAATATGT-TATGATGTTTAGCGGCGTTTTTTGT
1 AAAAACGCCGCAATAGGTGT-TGATATTTAGCAGCGTTTGTCAT
* * * * *
724917 TAAAACGCCGCAGTAGGTGTTGATGTTTTGCGGCGTTT
1 AAAAACGCCGCAATAGGTGTTGATATTTAGCAGCGTTT
724955 CTGCTAAAAA
Statistics
Matches: 316, Mismatches: 60, Indels: 14
0.81 0.15 0.04
Matches are distributed among these distances:
42 30 0.09
43 249 0.79
44 8 0.03
45 29 0.09
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.34
Consensus pattern (43 bp):
AAAAACGCCGCAATAGGTGTTGATATTTAGCAGCGTTTGTCAT
Found at i:734377 original size:42 final size:41
Alignment explanation
Indices: 734331--734617 Score: 294
Period size: 41 Copynumber: 6.9 Consensus size: 41
734321 GGTATTTATC
* * *
734331 TAAAAACGCCACTAAGGGTACGAGTCTATAGCAGCGTTTGTA
1 TAAAAACGCCACTAA-AGTACGAGTATATAGCGGCGTTTGTA
* * * *
734373 TAAAAACGCCACTAAAGTACTAGTCTGTAGCGGCGTTTATA
1 TAAAAACGCCACTAAAGTACGAGTATATAGCGGCGTTTGTA
** * *
734414 TAAAAACGCTGCTAAAGTACGAGTATTTAGTGGCGTTT-TCA
1 TAAAAACGCCACTAAAGTACGAGTATATAGCGGCGTTTGT-A
* * *
734455 TTCAAAACGCCACTAAAGTACGAGTTTATAGCAGCGTTTAG-A
1 -TAAAAACGCCACTAAAGTACGAGTATATAGCGGCGTTT-GTA
* * *
734497 TTCAAAACACCACTAAAGTATGAGTATATAGCGGCGTTTGTA
1 -TAAAAACGCCACTAAAGTACGAGTATATAGCGGCGTTTGTA
* *
734539 TAGAAACGCCACTAAAGTACTAGTATATAGCGGCGTTTGTA
1 TAAAAACGCCACTAAAGTACGAGTATATAGCGGCGTTTGTA
**
734580 TAAAAATACCACTAAAGTAC--GTACCTATAGCGGCGTTT
1 TAAAAACGCCACTAAAGTACGAGTA--TATAGCGGCGTTT
734618 CTGGATACAA
Statistics
Matches: 208, Mismatches: 30, Indels: 15
0.82 0.12 0.06
Matches are distributed among these distances:
39 3 0.01
40 1 0.00
41 121 0.58
42 83 0.40
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.27
Consensus pattern (41 bp):
TAAAAACGCCACTAAAGTACGAGTATATAGCGGCGTTTGTA
Found at i:734418 original size:83 final size:82
Alignment explanation
Indices: 734325--734617 Score: 313
Period size: 83 Copynumber: 3.5 Consensus size: 82
734315 TATTGCGGTA
* * * * *
734325 TTTATCTAAAAACGCCACTAAGGGTACGAGTCTATAGCAGCGTTTGTATAAAAACGCCACTAAAG
1 TTTATATAAAAACACCACTAA-AGTACGAGTATATAGCGGCGTTTGTATAAAAACGCCACTAAAG
* *
734390 TACTAGTCTGTAGCGGCG
65 TACTAGTATATAGCGGCG
* ** * * *
734408 TTTATATAAAAACGCTGCTAAAGTACGAGTATTTAGTGGCGTTT-TCATTCAAAACGCCACTAAA
1 TTTATATAAAAACACCACTAAAGTACGAGTATATAGCGGCGTTTGT-A-TAAAAACGCCACTAAA
* * *
734472 GTACGAGTTTATAGCAGCG
64 GTACTAGTATATAGCGGCG
* * * *
734491 TTTAGATTCAAAACACCACTAAAGTATGAGTATATAGCGGCGTTTGTATAGAAACGCCACTAAAG
1 TTTATA-TAAAAACACCACTAAAGTACGAGTATATAGCGGCGTTTGTATAAAAACGCCACTAAAG
734556 TACTAGTATATAGCGGCG
65 TACTAGTATATAGCGGCG
* *
734574 TTTGTATAAAAATACCACTAAAGTAC--GTACCTATAGCGGCGTTT
1 TTTATATAAAAACACCACTAAAGTACGAGTA--TATAGCGGCGTTT
734618 CTGGATACAA
Statistics
Matches: 173, Mismatches: 31, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
80 3 0.02
81 1 0.01
82 49 0.28
83 87 0.50
84 32 0.18
85 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (82 bp):
TTTATATAAAAACACCACTAAAGTACGAGTATATAGCGGCGTTTGTATAAAAACGCCACTAAAGT
ACTAGTATATAGCGGCG
Found at i:735960 original size:41 final size:40
Alignment explanation
Indices: 735893--736094 Score: 203
Period size: 41 Copynumber: 5.0 Consensus size: 40
735883 GTTTATACAA
*
735893 AAAAAATGCCACTATTGATT-ACACTATTGTGGCGTTTGTT
1 AAAAAATGCCACTATTGATTAACACTATTGCGGCGTTT-TT
* * **
735933 AAAAAATGCCACTATTGATTAAAACTATTGCAGTATTTTT
1 AAAAAATGCCACTATTGATTAACACTATTGCGGCGTTTTT
* *
735973 CTAAAAACGCCACTATTGATTAACACTATTGCGGCGTTTATT
1 -AAAAAATGCCACTATTGATTAACACTATTGCGGCGTTT-TT
* * * * *
736015 TAAAAATGCCACTATTTATTATCACTATTGCGGTGTTTTA
1 AAAAAATGCCACTATTGATTAACACTATTGCGGCGTTTTT
*
736055 AGAATAAATGCCACTATATG-TGTAA-TCTATTGCGGCGTTT
1 A-AA-AAATGCCACTAT-TGAT-TAACACTATTGCGGCGTTT
736095 GTGGTATAAA
Statistics
Matches: 134, Mismatches: 21, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
40 23 0.17
41 80 0.60
42 28 0.21
43 3 0.02
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (40 bp):
AAAAAATGCCACTATTGATTAACACTATTGCGGCGTTTTT
Found at i:736009 original size:82 final size:81
Alignment explanation
Indices: 735894--736045 Score: 232
Period size: 82 Copynumber: 1.9 Consensus size: 81
735884 TTTATACAAA
* * *
735894 AAAAATGCCACTATTGATTACACTATTGTGGCGTTTGTTAAAAAATGCCACTATTGATTAAAACT
1 AAAAACGCCACTATTGATTACACTATTGCGGCGTTTATTAAAAAATGCCACTATTGATTAAAACT
735959 ATTGCAGTATTTTTCT
66 ATTGCAGTATTTTTCT
* * **
735975 AAAAACGCCACTATTGATTAACACTATTGCGGCGTTTATTTAAAAATGCCACTATTTATTATCAC
1 AAAAACGCCACTATTGATT-ACACTATTGCGGCGTTTATTAAAAAATGCCACTATTGATTAAAAC
736040 TATTGC
65 TATTGC
736046 GGTGTTTTAA
Statistics
Matches: 63, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
81 18 0.29
82 45 0.71
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.37
Consensus pattern (81 bp):
AAAAACGCCACTATTGATTACACTATTGCGGCGTTTATTAAAAAATGCCACTATTGATTAAAACT
ATTGCAGTATTTTTCT
Found at i:736104 original size:42 final size:41
Alignment explanation
Indices: 736058--736187 Score: 133
Period size: 42 Copynumber: 3.1 Consensus size: 41
736048 TGTTTTAAGA
* *
736058 ATAAATGCCACTATATGTGTAATCTATTGCGGCGTTTGTGGT
1 ATAAACGCCACTATATGT-TAATCTATTGCAGCGTTTGTGGT
* *
736100 ATAAACGCCACTA-AT-TTACCAATCTATTACAGCGTTT-TAGCT
1 ATAAACGCCACTATATGTT---AATCTATTGCAGCGTTTGT-GGT
* *
736142 A-AAACACCACTATATGTTAAACTATTGCAGCGTTTGTGGT
1 ATAAACGCCACTATATGTTAATCTATTGCAGCGTTTGTGGT
736182 ATAAAC
1 ATAAAC
736188 ATCGCTAATT
Statistics
Matches: 72, Mismatches: 8, Indels: 17
0.74 0.08 0.18
Matches are distributed among these distances:
39 1 0.01
40 19 0.26
41 18 0.25
42 32 0.44
43 2 0.03
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (41 bp):
ATAAACGCCACTATATGTTAATCTATTGCAGCGTTTGTGGT
Found at i:736181 original size:82 final size:83
Alignment explanation
Indices: 736065--736219 Score: 240
Period size: 82 Copynumber: 1.9 Consensus size: 83
736055 AGAATAAATG
* * *
736065 CCACTATATGTGTAATCTATTGCGGCGTTTGTGGTATAAACGCCACTAATTTACCAATCTATTAC
1 CCACTATATGTGTAAACTATTGCAGCGTTTGTGGTATAAACACCACTAATTTACCAATCTATTAC
736130 AGCGTTTTAGCTAAAACA
66 AGCGTTTTAGCTAAAACA
* * *
736148 CCACTATATGT-TAAACTATTGCAGCGTTTGTGGTATAAACATCGCTAATTTACCACTCTATTAC
1 CCACTATATGTGTAAACTATTGCAGCGTTTGTGGTATAAACACCACTAATTTACCAATCTATTAC
*
736212 GGCGTTTT
66 AGCGTTTT
736220 TTAACAAACG
Statistics
Matches: 65, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
82 54 0.83
83 11 0.17
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.35
Consensus pattern (83 bp):
CCACTATATGTGTAAACTATTGCAGCGTTTGTGGTATAAACACCACTAATTTACCAATCTATTAC
AGCGTTTTAGCTAAAACA
Found at i:736217 original size:42 final size:41
Alignment explanation
Indices: 736079--736218 Score: 126
Period size: 42 Copynumber: 3.4 Consensus size: 41
736069 TATATGTGTA
* * *
736079 ATCTATTGCGGCGTTTGTGGTATAAACGCCACTAATTTACC
1 ATCTATTACAGCGTTTGTGGTATAAACACCACTAATTTACC
*
736120 AATCTATTACAGCGTTT-TAGCTA-AAACACCACTATATGTTA--
1 -ATCTATTACAGCGTTTGT-GGTATAAACACCACTA-AT-TTACC
* * * *
736161 AACTATTGCAGCGTTTGTGGTATAAACATCGCTAATTTACC
1 ATCTATTACAGCGTTTGTGGTATAAACACCACTAATTTACC
*
736202 ACTCTATTACGGCGTTT
1 A-TCTATTACAGCGTTT
736219 TTTAACAAAC
Statistics
Matches: 78, Mismatches: 12, Indels: 16
0.74 0.11 0.15
Matches are distributed among these distances:
39 3 0.04
40 19 0.24
41 22 0.28
42 31 0.40
43 3 0.04
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.35
Consensus pattern (41 bp):
ATCTATTACAGCGTTTGTGGTATAAACACCACTAATTTACC
Found at i:744840 original size:24 final size:24
Alignment explanation
Indices: 744813--744858 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
744803 GGTTGATTTC
744813 ATGGTTGT-TTGAACTTTATTTTTA
1 ATGG-TGTATTGAACTTTATTTTTA
* *
744837 ATGGTGTATTTAAGTTTATTTT
1 ATGGTGTATTGAACTTTATTTT
744859 GGTTCTTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 3 0.16
24 16 0.84
ACGTcount: A:0.22, C:0.02, G:0.17, T:0.59
Consensus pattern (24 bp):
ATGGTGTATTGAACTTTATTTTTA
Found at i:749298 original size:87 final size:87
Alignment explanation
Indices: 749207--749380 Score: 219
Period size: 87 Copynumber: 2.0 Consensus size: 87
749197 ACAATTATAC
* * * * *
749207 GTCATGAATTTATGACGCGCATTTATGACGCT-CATTGCGCGTCATTGAAGCCCCCGTCA-TA-A
1 GTCATAAATTTATGACACGCATTTATGAC-CTACATTGCGCGTCATTGAAGCACACGCCATTAGA
*
749269 ATGAAGATGACACACATTTGTGTGT
65 A--AAGATGACACACATTCGTGTGT
* * *
749294 GTCATAAATTTATGACATGCATTTATGACTTACATTGCGTGTCATTGAAGCACACGCCATTAGAA
1 GTCATAAATTTATGACACGCATTTATGACCTACATTGCGCGTCATTGAAGCACACGCCATTAGAA
749359 AAGATGACACACATTCGTGTGT
66 AAGATGACACACATTCGTGTGT
749381 CTTAATTGTA
Statistics
Matches: 75, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
86 1 0.01
87 70 0.93
88 2 0.03
89 2 0.03
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.30
Consensus pattern (87 bp):
GTCATAAATTTATGACACGCATTTATGACCTACATTGCGCGTCATTGAAGCACACGCCATTAGAA
AAGATGACACACATTCGTGTGT
Found at i:749408 original size:2 final size:2
Alignment explanation
Indices: 749401--749429 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
749391 TGTCGTAAAT
749401 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
749430 TGTAGATTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:758834 original size:361 final size:361
Alignment explanation
Indices: 758167--758885 Score: 1271
Period size: 361 Copynumber: 2.0 Consensus size: 361
758157 GTGATCGAAA
758167 CATAAATAAATAAAATTAAAAGACAAAATAAAAATATATGAAACATGCTTTTGATGACTAAATTG
1 CATAAATAAATAAAATTAAAAGACAAAATAAAAATATATGAAACATGCTTTTGATGACTAAATTG
* * * *
758232 CAAGGTTACAAAATTATAGGGACATCATACTCAATTTCCTTATACCCCAAATTACACGCAGGTCC
66 CAAGGTTACAAAATTACAAGGACATCAGACTCAATTTCCTCATACCCCAAATTACACGCAGGTCC
** * *
758297 CTTCCCAAAACGGTGGTCGAAAAACACCAAACTACCTAAAATACAGATCATGACCCCCTCTACTC
131 CTTAACAAAACGGTGGCCGAAAAACACCAAACTACCTAAAATACAGATCACGACCCCCTCTACTC
758362 GAATCTAGGTTTACTTTTTCATAAAAACCTTCGAATAACCTAGATCTAAATTTTTACCTTCGGCG
196 GAATCTAGGTTTACTTTTTCATAAAAACCTTCGAATAACCTAGATCTAAATTTTTACCTTCGGCG
758427 TTTCGAATCTCAACACTTGCGTGGAAGCTCTGGTGACTGAGTAAGTTTCTTCTTCTCTATTTTCA
261 TTTCGAATCTCAACACTTGCGTGGAAGCTCTGGTGACTGAGTAAGTTTCTTCTTCTCTATTTTCA
*
758492 TTTGCTGGTTTGGATGGTTGCCTTCCTGCTTGCCCT
326 TTTGCTAGTTTGGATGGTTGCCTTCCTGCTTGCCCT
*
758528 CATAAATAAATAAAATTAAAAGACAAAATTAAAATATATGAAACATGCTTTTGATGACTAAATTG
1 CATAAATAAATAAAATTAAAAGACAAAATAAAAATATATGAAACATGCTTTTGATGACTAAATTG
*
758593 CAAGGTTACAAAATTACAAGGACATCAGACTCAATTTCC-CATACCCCAAATTACACGCAGGTCT
66 CAAGGTTACAAAATTACAAGGACATCAGACTCAATTTCCTCATACCCCAAATTACACGCAGGTCC
758657 CTTAACAAAACGGTGGCCGAAAAACACCAAACTACCTAAAATACAGATCACGACCCCCTCTACTC
131 CTTAACAAAACGGTGGCCGAAAAACACCAAACTACCTAAAATACAGATCACGACCCCCTCTACTC
*
758722 GAATCTAGGTTTACTTTTTCATAAAATCCTTC-ACATCAACCTAGATCTAAATTTTTACCTTCGG
196 GAATCTAGGTTTACTTTTTCATAAAAACCTTCGA-AT-AACCTAGATCTAAATTTTTACCTTCGG
* *
758786 CGTTTCGAATCTCAGCACTTGCGTGGAAGCTCTGGTGACTGGGTAAGTTTCTTCTTCTCTATTTT
259 CGTTTCGAATCTCAACACTTGCGTGGAAGCTCTGGTGACTGAGTAAGTTTCTTCTTCTCTATTTT
*
758851 CATTTGCTAGTTTGGATGGTTGCCTTCTTGCTTGC
324 CATTTGCTAGTTTGGATGGTTGCCTTCCTGCTTGC
758886 TCGATGTTTG
Statistics
Matches: 341, Mismatches: 15, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
359 1 0.00
360 117 0.34
361 223 0.65
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.31
Consensus pattern (361 bp):
CATAAATAAATAAAATTAAAAGACAAAATAAAAATATATGAAACATGCTTTTGATGACTAAATTG
CAAGGTTACAAAATTACAAGGACATCAGACTCAATTTCCTCATACCCCAAATTACACGCAGGTCC
CTTAACAAAACGGTGGCCGAAAAACACCAAACTACCTAAAATACAGATCACGACCCCCTCTACTC
GAATCTAGGTTTACTTTTTCATAAAAACCTTCGAATAACCTAGATCTAAATTTTTACCTTCGGCG
TTTCGAATCTCAACACTTGCGTGGAAGCTCTGGTGACTGAGTAAGTTTCTTCTTCTCTATTTTCA
TTTGCTAGTTTGGATGGTTGCCTTCCTGCTTGCCCT
Found at i:759656 original size:14 final size:14
Alignment explanation
Indices: 759635--759677 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
759625 GCCCTCTATT
*
759635 CGAACATAAATGAG
1 CGAACATAAATGAA
*
759649 CTAACATAAATGAA
1 CGAACATAAATGAA
*
759663 CGAACATAAACGAA
1 CGAACATAAATGAA
759677 C
1 C
759678 ATATAATCGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.53, C:0.19, G:0.14, T:0.14
Consensus pattern (14 bp):
CGAACATAAATGAA
Found at i:759878 original size:14 final size:13
Alignment explanation
Indices: 759859--759894 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
759849 CTCTAAACAC
759859 TAATTTAGGGTTT
1 TAATTTAGGGTTT
759872 ATAATTTAGGGTTT
1 -TAATTTAGGGTTT
*
759886 TAAGTTAGG
1 TAATTTAGG
759895 AGAATAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 8 0.38
14 13 0.62
ACGTcount: A:0.28, C:0.00, G:0.25, T:0.47
Consensus pattern (13 bp):
TAATTTAGGGTTT
Found at i:761052 original size:29 final size:29
Alignment explanation
Indices: 761020--761124 Score: 149
Period size: 29 Copynumber: 3.6 Consensus size: 29
761010 ATCAAGTGAC
761020 TTGTAACATTTTATAGTAAATTGACTATT
1 TTGTAACATTTTATAGTAAATTGACTATT
761049 TTGTAACATTTTATAGTAAATTGACTATT
1 TTGTAACATTTTATAGTAAATTGACTATT
* * *
761078 TTGTAACTTTTTATAGTCAAA-GGATTATT
1 TTGTAACATTTTATAGT-AAATTGACTATT
**
761107 TTGTAATTTTTTATAGTA
1 TTGTAACATTTTATAGTA
761125 GAGGGACTTA
Statistics
Matches: 71, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
28 1 0.01
29 67 0.94
30 3 0.04
ACGTcount: A:0.32, C:0.06, G:0.11, T:0.50
Consensus pattern (29 bp):
TTGTAACATTTTATAGTAAATTGACTATT
Found at i:764851 original size:29 final size:27
Alignment explanation
Indices: 764819--764909 Score: 71
Period size: 31 Copynumber: 3.2 Consensus size: 27
764809 AATTTATTAA
764819 ATATA-TTTTTTATCTTAATGTAAAAAT
1 ATATATTTTTTTATCTTAAT-TAAAAAT
* *
764846 ATATATTTTATCTTTATCATCACTTAAAAAT
1 ATATA-TTT-T-TTTATC-TTAATTAAAAAT
764877 ATAT-TTTTTATATATCTTAACTT-AAAAT
1 ATATATTTTT-T-TATCTTAA-TTAAAAAT
764905 ATATA
1 ATATA
764910 AAAATATTTA
Statistics
Matches: 51, Mismatches: 4, Indels: 16
0.72 0.06 0.23
Matches are distributed among these distances:
27 6 0.12
28 13 0.25
29 11 0.22
30 1 0.02
31 17 0.33
32 3 0.06
ACGTcount: A:0.41, C:0.08, G:0.01, T:0.51
Consensus pattern (27 bp):
ATATATTTTTTTATCTTAATTAAAAAT
Found at i:765019 original size:31 final size:29
Alignment explanation
Indices: 764984--765077 Score: 118
Period size: 29 Copynumber: 3.2 Consensus size: 29
764974 ATAATATTTT
764984 AATATATTTTTAAAAGTTAAGATAATAATAA
1 AATATATTTTT--AAGTTAAGATAATAATAA
* *
765015 AATATATTTTTAATTTAAAATAAGT-ATAA
1 AATATATTTTTAAGTTAAGATAA-TAATAA
* *
765044 AATATATTTTTAAGTAAAGATAAGAATAA
1 AATATATTTTTAAGTTAAGATAATAATAA
765073 AATAT
1 AATAT
765078 TATATATATT
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
29 43 0.78
30 1 0.02
31 11 0.20
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.39
Consensus pattern (29 bp):
AATATATTTTTAAGTTAAGATAATAATAA
Found at i:765073 original size:58 final size:63
Alignment explanation
Indices: 764984--765119 Score: 167
Period size: 64 Copynumber: 2.2 Consensus size: 63
764974 ATAATATTTT
* *
764984 AATATATTTTTAAAAGTTAAGATAATAAT-AA-A-ATATAT-TTTTAATTTAAAATAAGTA-TAA
1 AATATATTTTT-AAAGTAAAGATAAGAATAAATATATATATATTTTAATTTAAAATAAG-AGTAA
765044 AATATATTTTT-AAGTAAAGATAAGAATAAAATATTATATATATTTTAATTTAAAATAAGAGTAA
1 AATATATTTTTAAAGTAAAGATAAGAAT-AAATA-TATATATATTTTAATTTAAAATAAGAGTAA
765108 AATATATATTTT
1 AATATAT-TTTT
765120 TTATTAAATT
Statistics
Matches: 66, Mismatches: 2, Indels: 11
0.84 0.03 0.14
Matches are distributed among these distances:
58 14 0.21
60 13 0.20
61 1 0.02
63 7 0.11
64 27 0.41
65 4 0.06
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (63 bp):
AATATATTTTTAAAGTAAAGATAAGAATAAATATATATATATTTTAATTTAAAATAAGAGTAA
Found at i:765096 original size:64 final size:63
Alignment explanation
Indices: 764984--765154 Score: 192
Period size: 66 Copynumber: 2.7 Consensus size: 63
764974 ATAATATTTT
**
764984 AATATATTTTTA-AAAGTTAAG-ATAATAATAAAATATAT-TTTTAATTTAAAAT-A-AGTATAA
1 AATATATTTTTATAAAGTTAAGAATAA-AATATTATATATATTTTAATTTAAAATAAGAGTA-AA
*
765044 AATATATTTTTAAGTAAAGATAAGAATAAAATATTATATATATTTTAATTTAAAATAAGAGTAAA
1 AATATATTTTT-A-TAAAGTTAAGAATAAAATATTATATATATTTTAATTTAAAATAAGAGTAAA
*
765109 ATATATATTTTTTATTAAA-TTAATAATAAAATATTTATATATATTT
1 A-ATATA-TTTTTA-TAAAGTTAAGAATAAAATA-TTATATATATTT
765155 CAAGTTAAGA
Statistics
Matches: 95, Mismatches: 6, Indels: 14
0.83 0.05 0.12
Matches are distributed among these distances:
60 11 0.12
61 1 0.01
63 18 0.19
64 18 0.19
65 16 0.17
66 26 0.27
67 5 0.05
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (63 bp):
AATATATTTTTATAAAGTTAAGAATAAAATATTATATATATTTTAATTTAAAATAAGAGTAAA
Found at i:765127 original size:30 final size:31
Alignment explanation
Indices: 764985--765218 Score: 133
Period size: 31 Copynumber: 7.4 Consensus size: 31
764975 TAATATTTTA
* * *
764985 ATATATTTTTAAAAGTTAAGATAATAAT-AAA-
1 ATATATTTTT--AATTTAAAATAAGAATAAAAT
*
765016 ATATATTTTTAATTTAAAATAAGTAT-AAA-
1 ATATATTTTTAATTTAAAATAAGAATAAAAT
*
765045 ATATATTTTTAA-GTAAAGATAAGAATAAAATATT
1 ATATATTTTTAATTTAAA-ATAAGAAT-AAA-A-T
*
765079 ATATATATTTTAATTTAAAATAAGAGTAAAAT
1 ATATAT-TTTTAATTTAAAATAAGAATAAAAT
* * *
765111 ATATATTTTTTA-TTAAATTAATAATAAAAT
1 ATATATTTTTAATTTAAAATAAGAATAAAAT
* * **
765141 ATTTATATATATTTCAAGTTAAGATATTTAA-AAAAT
1 A--TATAT-T-TTT-AATTTAAAATA-AGAATAAAAT
* * **
765177 ATATATTTTTAACTGATGATAA-AGATAAAAT
1 ATATATTTTTAATTTAAAATAAGA-ATAAAAT
765208 ATATATTTTTA
1 ATATATTTTTA
765219 CATTAAATAA
Statistics
Matches: 166, Mismatches: 20, Indels: 34
0.75 0.09 0.15
Matches are distributed among these distances:
28 4 0.02
29 35 0.21
30 17 0.10
31 41 0.25
32 16 0.10
33 3 0.02
34 17 0.10
35 14 0.08
36 16 0.10
37 3 0.02
ACGTcount: A:0.50, C:0.01, G:0.06, T:0.43
Consensus pattern (31 bp):
ATATATTTTTAATTTAAAATAAGAATAAAAT
Found at i:765128 original size:29 final size:30
Alignment explanation
Indices: 764985--765245 Score: 117
Period size: 31 Copynumber: 8.3 Consensus size: 30
764975 TAATATTTTA
* *
764985 ATATATTTTTAAAAGTTAAGATAATAAT-AAA-
1 ATATATTTTT--AATTTAA-ATAAGAATAAAAT
*
765016 ATATATTTTTAATTTAAAATAAGTAT-AAA-
1 ATATATTTTTAATTT-AAATAAGAATAAAAT
* *
765045 ATATATTTTTAAGTAAAGATAAGAATAAAATATT
1 ATATATTTTTAATTTAA-ATAAGAAT-AAA-A-T
*
765079 ATATATATTTTAATTTAAAATAAGAGTAAAAT
1 ATATAT-TTTTAATTT-AAATAAGAATAAAAT
* *
765111 ATATATTTTTTA-TTAAATTAATAATAAAAT
1 ATATATTTTTAATTTAAA-TAAGAATAAAAT
* **
765141 ATTTATATATATTTCAAGTTAAGATATTTAA-AAAAT
1 A--TATAT-T-TTT-AATTTAA-ATA-AGAATAAAAT
* * *
765177 ATATATTTTTAACTGATGATAA-AGATAAAAT
1 ATATATTTTTAATTTA-AATAAGA-ATAAAAT
* *
765208 ATATATTTTTACA-TTAAATAA-AAAAACAAA
1 ATATATTTTTA-ATTTAAATAAGAATAA-AAT
765238 ATATATTT
1 ATATATTT
765246 AATAAATTAA
Statistics
Matches: 185, Mismatches: 22, Indels: 47
0.73 0.09 0.19
Matches are distributed among these distances:
28 2 0.01
29 40 0.22
30 31 0.17
31 42 0.23
32 17 0.09
33 3 0.02
34 17 0.09
35 15 0.08
36 14 0.08
37 4 0.02
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.42
Consensus pattern (30 bp):
ATATATTTTTAATTTAAATAAGAATAAAAT
Found at i:765148 original size:32 final size:34
Alignment explanation
Indices: 765016--765150 Score: 119
Period size: 30 Copynumber: 4.2 Consensus size: 34
765006 TAATAATAAA
*
765016 ATATATTTTTAATTTAAAATAAGTAT-AAA-A--T
1 ATATA-TTTTAATTTAAAATAAGAATAAAATATTT
*
765047 ATAT-TTTTAA-GTAAAGATAAGAATAAAATATTAT
1 ATATATTTTAATTTAAA-ATAAGAATAAAATATT-T
*
765081 ATATATTTTAATTTAAAATAAGAGTAAAATA--T
1 ATATATTTTAATTTAAAATAAGAATAAAATATTT
* * *
765113 ATAT-TTTTTA-TTAAATTAATAATAAAATATTT
1 ATATATTTTAATTTAAAATAAGAATAAAATATTT
765145 ATATAT
1 ATATAT
765151 ATTTCAAGTT
Statistics
Matches: 85, Mismatches: 8, Indels: 20
0.75 0.07 0.18
Matches are distributed among these distances:
28 4 0.05
29 13 0.15
30 19 0.22
31 10 0.12
32 10 0.12
33 1 0.01
34 5 0.06
35 19 0.22
36 4 0.05
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.44
Consensus pattern (34 bp):
ATATATTTTAATTTAAAATAAGAATAAAATATTT
Found at i:765176 original size:66 final size:66
Alignment explanation
Indices: 765016--765213 Score: 167
Period size: 66 Copynumber: 3.1 Consensus size: 66
765006 TAATAATAAA
* * * *
765016 ATATAT-TTTTAATTTAAAATAAG-TATAAA-ATATATTTTTAAGTAAAGATAAGAATAAAATAT
1 ATATATATTTCAAGTTAAAATAAGAGAAAAATATATATTTTTAAGTAAAGATAAGAATAAAATAT
765078 T
66 T
* * * * * * *
765079 ATATATATTTTAATTTAAAATAAGAGTAAAATATATATTTTTTATTAAA-TTAATAATAAAATAT
1 ATATATATTTCAAGTTAAAATAAGAGAAAAATATATATTTTTAAGTAAAGATAAGAATAAAATA-
765143 TT
65 TT
* ** * * *
765145 ATATATATTTCAAGTTAAGATATTTA-AAAAATATATATTTTTAACTGATGATAA-AGATAAAAT
1 ATATATATTTCAAGTTAAAATA-AGAGAAAAATATATATTTTTAAGTAAAGATAAGA-ATAAAAT
765208 A-T
64 ATT
765210 ATAT
1 ATAT
765214 TTTTACATTA
Statistics
Matches: 110, Mismatches: 18, Indels: 12
0.79 0.13 0.09
Matches are distributed among these distances:
63 6 0.05
64 17 0.15
65 20 0.18
66 55 0.50
67 12 0.11
ACGTcount: A:0.51, C:0.01, G:0.06, T:0.43
Consensus pattern (66 bp):
ATATATATTTCAAGTTAAAATAAGAGAAAAATATATATTTTTAAGTAAAGATAAGAATAAAATAT
T
Found at i:765273 original size:29 final size:30
Alignment explanation
Indices: 765201--765296 Score: 104
Period size: 29 Copynumber: 3.2 Consensus size: 30
765191 GATGATAAAG
** * *
765201 ATAAAATATATATTTTTACATTAAATAAAAAA
1 ATAAAATATAT-TTAATAAATTAAA-ACAAAA
* *
765233 ACAAAATATATTTAATAAATTAAGACAAAA
1 ATAAAATATATTTAATAAATTAAAACAAAA
*
765263 ATAAAA-ATATTTAATAAGTTAAAACAAAA
1 ATAAAATATATTTAATAAATTAAAACAAAA
765292 ATAAA
1 ATAAA
765297 GAGATAATTT
Statistics
Matches: 55, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
29 26 0.47
30 10 0.18
31 9 0.16
32 10 0.18
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (30 bp):
ATAAAATATATTTAATAAATTAAAACAAAA
Found at i:765567 original size:16 final size:16
Alignment explanation
Indices: 765542--765575 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
765532 TGGTAGAAAT
* *
765542 AAATATATTAAACTAA
1 AAATAAATTAAAATAA
765558 AAATAAATTAAAATAA
1 AAATAAATTAAAATAA
765574 AA
1 AA
765576 CTAATCTTCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (16 bp):
AAATAAATTAAAATAA
Found at i:769577 original size:15 final size:16
Alignment explanation
Indices: 769557--769591 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
769547 AAATTTTAGA
769557 AAATT-ATGAGAATAT
1 AAATTAATGAGAATAT
*
769572 AAATTAATGTGAATAT
1 AAATTAATGAGAATAT
769588 AAAT
1 AAAT
769592 ATTTAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.54, C:0.00, G:0.11, T:0.34
Consensus pattern (16 bp):
AAATTAATGAGAATAT
Found at i:769658 original size:31 final size:31
Alignment explanation
Indices: 769623--769684 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
769613 CAATACAAAA
769623 ATAGAAACGCAATGAAATCGATATAAATAAG
1 ATAGAAACGCAATGAAATCGATATAAATAAG
769654 ATAGAAACGCAATGAAATCGATATAAATAAG
1 ATAGAAACGCAATGAAATCGATATAAATAAG
769685 TTATTAACTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.55, C:0.10, G:0.16, T:0.19
Consensus pattern (31 bp):
ATAGAAACGCAATGAAATCGATATAAATAAG
Found at i:771280 original size:20 final size:20
Alignment explanation
Indices: 771257--771320 Score: 110
Period size: 20 Copynumber: 3.2 Consensus size: 20
771247 TTTATAAATC
771257 GCAACACAGAAGTCAAATTT
1 GCAACACAGAAGTCAAATTT
*
771277 GCAACACAAAAGTCAAATTT
1 GCAACACAGAAGTCAAATTT
*
771297 GCAACACAGAAGTCAAATTC
1 GCAACACAGAAGTCAAATTT
771317 GCAA
1 GCAA
771321 AGCACATTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.47, C:0.22, G:0.14, T:0.17
Consensus pattern (20 bp):
GCAACACAGAAGTCAAATTT
Found at i:771501 original size:23 final size:22
Alignment explanation
Indices: 771475--771526 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
771465 CTACGGCGAC
771475 ATCCGTCCCCATCTCCGAACGAA
1 ATCCGTCCCCATCTCCG-ACGAA
* *
771498 ATCCATCCCCATCTCCGGCGAA
1 ATCCGTCCCCATCTCCGACGAA
771520 ATCCGTC
1 ATCCGTC
771527 TATCTCCATC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 10 0.38
23 16 0.62
ACGTcount: A:0.23, C:0.44, G:0.13, T:0.19
Consensus pattern (22 bp):
ATCCGTCCCCATCTCCGACGAA
Found at i:771522 original size:22 final size:22
Alignment explanation
Indices: 771468--771523 Score: 76
Period size: 23 Copynumber: 2.5 Consensus size: 22
771458 TCACTCTCTA
* *
771468 CGGCGACATCCGTCCCCATCTC
1 CGGCGAAATCCATCCCCATCTC
*
771490 CGAACGAAATCCATCCCCATCTC
1 CG-GCGAAATCCATCCCCATCTC
771513 CGGCGAAATCC
1 CGGCGAAATCC
771524 GTCTATCTCC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 10 0.34
23 19 0.66
ACGTcount: A:0.23, C:0.45, G:0.16, T:0.16
Consensus pattern (22 bp):
CGGCGAAATCCATCCCCATCTC
Found at i:771937 original size:20 final size:20
Alignment explanation
Indices: 771885--772064 Score: 150
Period size: 20 Copynumber: 9.6 Consensus size: 20
771875 CGATTTTAGT
771885 TTCGCGTTGCGATTTTCATG
1 TTCGCGTTGCGATTTTCATG
* *
771905 TTCACGTTACGATTTTCATG
1 TTCGCGTTGCGATTTTCATG
*
771925 TTCGTGTTGCGA---T-AT-
1 TTCGCGTTGCGATTTTCATG
*
771940 TT-GCGTTGAGATTTTCATG
1 TTCGCGTTGCGATTTTCATG
771959 TTCGCGTTGCGA---T-AT-
1 TTCGCGTTGCGATTTTCATG
* * * *
771974 TT-ACGTTGTGATTTTAATT
1 TTCGCGTTGCGATTTTCATG
* *
771993 TTCGCGTTGCGATTTTAATT
1 TTCGCGTTGCGATTTTCATG
*
772013 TTCACGTTGCGATTTTCATG
1 TTCGCGTTGCGATTTTCATG
* *
772033 TTTGCGTTGCGATTTTCATT
1 TTCGCGTTGCGATTTTCATG
*
772053 TTCACGTTGCGA
1 TTCGCGTTGCGA
772065 ATTTAAGTTT
Statistics
Matches: 128, Mismatches: 20, Indels: 24
0.74 0.12 0.14
Matches are distributed among these distances:
14 14 0.11
15 4 0.03
16 4 0.03
17 4 0.03
18 4 0.03
19 4 0.03
20 94 0.73
ACGTcount: A:0.15, C:0.16, G:0.22, T:0.47
Consensus pattern (20 bp):
TTCGCGTTGCGATTTTCATG
Found at i:771953 original size:54 final size:53
Alignment explanation
Indices: 771884--772049 Score: 183
Period size: 54 Copynumber: 3.1 Consensus size: 53
771874 GCGATTTTAG
*
771884 TTTCGCGTTGCGATTTTCATGTTCACGTTACGATTTTCATGTTCGTGTTGCGAT
1 TTTCGCGTTGCGATTTTCATGTTCACGTTGCGATTTTCATGTT-GTGTTGCGAT
* * * ***
771938 ATTT-GCGTTGAGATTTTCATGTTCGCGTTGCGATATTT-ACGTTGTGATTTTAAT
1 -TTTCGCGTTGCGATTTTCATGTTCACGTTGCGAT-TTTCATGTTGTG-TTGCGAT
* * *
771992 TTTCGCGTTGCGATTTTAATTTTCACGTTGCGATTTTCATGTTTGCGTTGCGAT
1 TTTCGCGTTGCGATTTTCATGTTCACGTTGCGATTTTCATG-TTGTGTTGCGAT
772046 TTTC
1 TTTC
772050 ATTTTCACGT
Statistics
Matches: 90, Mismatches: 16, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
53 9 0.10
54 71 0.79
55 10 0.11
ACGTcount: A:0.14, C:0.16, G:0.22, T:0.48
Consensus pattern (53 bp):
TTTCGCGTTGCGATTTTCATGTTCACGTTGCGATTTTCATGTTGTGTTGCGAT
Found at i:772061 original size:40 final size:39
Alignment explanation
Indices: 771874--772064 Score: 165
Period size: 34 Copynumber: 5.1 Consensus size: 39
771864 AAATCGCAAC
*
771874 GCGATTTT-A-GTTTCGCGTTGCGATTTTCATGTTCACGTT
1 GCGATTTTCATGTTT-GCGTTGCGATTTT-ATTTTCACGTT
* * * *
771913 ACGATTTTCATGTTCGTGTTGCGA---TA-TTT-GCGTT
1 GCGATTTTCATGTTTGCGTTGCGATTTTATTTTCACGTT
* *
771947 GAGATTTTCATGTTCGCGTTGCGA---TA-TTT-ACGTT
1 GCGATTTTCATGTTTGCGTTGCGATTTTATTTTCACGTT
* *
771981 GTGATTTTAAT-TTTCGCGTTGCGATTTTAATTTTCACGTT
1 GCGATTTTCATGTTT-GCGTTGCGATTTT-ATTTTCACGTT
772021 GCGATTTTCATGTTTGCGTTGCGATTTTCATTTTCACGTT
1 GCGATTTTCATGTTTGCGTTGCGATTTT-ATTTTCACGTT
772061 GCGA
1 GCGA
772065 ATTTAAGTTT
Statistics
Matches: 127, Mismatches: 15, Indels: 19
0.79 0.09 0.12
Matches are distributed among these distances:
33 2 0.02
34 52 0.41
35 2 0.02
36 1 0.01
37 2 0.02
38 1 0.01
39 10 0.08
40 51 0.40
41 6 0.05
ACGTcount: A:0.15, C:0.16, G:0.22, T:0.47
Consensus pattern (39 bp):
GCGATTTTCATGTTTGCGTTGCGATTTTATTTTCACGTT
Found at i:772075 original size:20 final size:20
Alignment explanation
Indices: 771976--772076 Score: 123
Period size: 20 Copynumber: 5.0 Consensus size: 20
771966 TGCGATATTT
*
771976 ACGTTGTGATTTTAATTTTC
1 ACGTTGCGATTTTAATTTTC
*
771996 GCGTTGCGATTTTAATTTTC
1 ACGTTGCGATTTTAATTTTC
*
772016 ACGTTGCGATTTTCATGTTT-
1 ACGTTGCGATTTTAAT-TTTC
* *
772036 GCGTTGCGATTTTCATTTTC
1 ACGTTGCGATTTTAATTTTC
* *
772056 ACGTTGCGAATTTAAGTTTC
1 ACGTTGCGATTTTAATTTTC
772076 A
1 A
772077 GAAACTACTC
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
19 3 0.04
20 64 0.91
21 3 0.04
ACGTcount: A:0.18, C:0.15, G:0.19, T:0.49
Consensus pattern (20 bp):
ACGTTGCGATTTTAATTTTC
Found at i:772450 original size:178 final size:178
Alignment explanation
Indices: 772151--772506 Score: 676
Period size: 178 Copynumber: 2.0 Consensus size: 178
772141 GACAAATACT
772151 AACTTCACAGTGTTGCGAATTTAAGTTTCAAGAATAAACTAAGAATAAACTACTACTCTTTATGT
1 AACTTCACAGTGTTGCGAATTTAAGTTTCAAGAATAAACTAAGAATAAACTACTACTCTTTATGT
*
772216 TGTCCTTGAACATGCATTAAACATATATGTTGTCTTTTTAAATGTTTATATAAGTGCTTACTTCT
66 TGTCCTTGAACATGCATTAAACATATATGTTGTCCTTTTAAATGTTTATATAAGTGCTTACTTCT
* *
772281 GGATATGATGTTTTGTGAACTATGATGGAATAATGACTTTGGTGAATA
131 GGATATGATGTTTTGTGAACTATGATGGAATAATAACTTGGGTGAATA
772329 AACTTCACAGTGTTGCGAATTTAAGTTTCAAGAATAAACTAAGAATAAACTACTACTCTTTATGT
1 AACTTCACAGTGTTGCGAATTTAAGTTTCAAGAATAAACTAAGAATAAACTACTACTCTTTATGT
*
772394 TGTCCTTGAACCTGCATTAAACATATATGTTGTCCTTTTAAATGTTTATATAAGTGCTTACTTCT
66 TGTCCTTGAACATGCATTAAACATATATGTTGTCCTTTTAAATGTTTATATAAGTGCTTACTTCT
772459 GGATATGATGTTTTGTGAACTATGATGGAATAATAACTTGGGTGAATA
131 GGATATGATGTTTTGTGAACTATGATGGAATAATAACTTGGGTGAATA
772507 CCGTGCTAGT
Statistics
Matches: 174, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
178 174 1.00
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.39
Consensus pattern (178 bp):
AACTTCACAGTGTTGCGAATTTAAGTTTCAAGAATAAACTAAGAATAAACTACTACTCTTTATGT
TGTCCTTGAACATGCATTAAACATATATGTTGTCCTTTTAAATGTTTATATAAGTGCTTACTTCT
GGATATGATGTTTTGTGAACTATGATGGAATAATAACTTGGGTGAATA
Found at i:774432 original size:21 final size:21
Alignment explanation
Indices: 774408--774475 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
774398 CTCATCATCG
774408 AAGAGGCCCCTCCCACCGTTC
1 AAGAGGCCCCTCCCACCGTTC
** *
774429 AAGAGGCCCCTGTCATCGTTC
1 AAGAGGCCCCTCCCACCGTTC
* * * *
774450 AAGAGGTCTCACCCGCCGTTC
1 AAGAGGCCCCTCCCACCGTTC
774471 AAGAG
1 AAGAG
774476 CCCGATTCAC
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.22, C:0.37, G:0.24, T:0.18
Consensus pattern (21 bp):
AAGAGGCCCCTCCCACCGTTC
Found at i:774454 original size:42 final size:42
Alignment explanation
Indices: 774357--774475 Score: 123
Period size: 42 Copynumber: 2.8 Consensus size: 42
774347 GATGCACCTA
* * * * *
774357 TCATCGTTCAAGAGGTGCCTCCTATCGTTCAAGAAGCCTCTC
1 TCATCGTTCAAGAGGTCCCTCCCACCGTTCAAGAGGCCCCTC
* * *
774399 TCATC-ATCGAAGAGGCCCCTCCCACCGTTCAAGAGGCCCCTG
1 TCATCGTTC-AAGAGGTCCCTCCCACCGTTCAAGAGGCCCCTC
* * *
774441 TCATCGTTCAAGAGGTCTCACCCGCCGTTCAAGAG
1 TCATCGTTCAAGAGGTCCCTCCCACCGTTCAAGAG
774476 CCCGATTCAC
Statistics
Matches: 62, Mismatches: 13, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
41 2 0.03
42 58 0.94
43 2 0.03
ACGTcount: A:0.22, C:0.34, G:0.21, T:0.23
Consensus pattern (42 bp):
TCATCGTTCAAGAGGTCCCTCCCACCGTTCAAGAGGCCCCTC
Found at i:775903 original size:13 final size:14
Alignment explanation
Indices: 775870--775909 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
775860 TTTTTTGCTT
775870 GTTGATTTGTAAAA
1 GTTGATTTGTAAAA
**
775884 GTTGATTTGTTTAA
1 GTTGATTTGTAAAA
775898 -TTGATTTGTAAA
1 GTTGATTTGTAAA
775910 TAAGAATTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (14 bp):
GTTGATTTGTAAAA
Found at i:776098 original size:20 final size:20
Alignment explanation
Indices: 776057--776106 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
776047 TTGTTGCGAT
**
776057 AGTCAAATTCGCAACGTTAA
1 AGTCAAATTCGCAACGCAAA
* *
776077 AGTTAAATTCGCAATGCAAA
1 AGTCAAATTCGCAACGCAAA
776097 AGTCAAATTC
1 AGTCAAATTC
776107 ACGTTGCGAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.26
Consensus pattern (20 bp):
AGTCAAATTCGCAACGCAAA
Found at i:776147 original size:20 final size:20
Alignment explanation
Indices: 776132--776170 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
776122 ATTTGCGATT
776132 TTGATTTTCGCGTTGCGAAA
1 TTGATTTTCGCGTTGCGAAA
* *
776152 TTGACTATCGCGTTGCGAA
1 TTGATTTTCGCGTTGCGAA
776171 TTTAACTTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.18, G:0.26, T:0.36
Consensus pattern (20 bp):
TTGATTTTCGCGTTGCGAAA
Found at i:776182 original size:20 final size:20
Alignment explanation
Indices: 776137--776182 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
776127 CGATTTTGAT
*
776137 TTTCGCGTTGCGAAATTGAC
1 TTTCGCGTTGCGAAATTAAC
* *
776157 TATCGCGTTGCGAATTTAAC
1 TTTCGCGTTGCGAAATTAAC
776177 TTTCGC
1 TTTCGC
776183 AACAATCGCA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.37
Consensus pattern (20 bp):
TTTCGCGTTGCGAAATTAAC
Found at i:776439 original size:6 final size:6
Alignment explanation
Indices: 776430--776464 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
776420 TTGTGATTGA
**
776430 GATTTT GATTTT GATTGC GATTTT GATTTT GATTT
1 GATTTT GATTTT GATTTT GATTTT GATTTT GATTT
776465 CCTTTTGCTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.17, C:0.03, G:0.20, T:0.60
Consensus pattern (6 bp):
GATTTT
Found at i:776446 original size:18 final size:18
Alignment explanation
Indices: 776423--776463 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
776413 AAGCCGGTTG
776423 TGATTGAGATTTTGATTT
1 TGATTGAGATTTTGATTT
*
776441 TGATTGCGATTTTGATTT
1 TGATTGAGATTTTGATTT
776459 TGATT
1 TGATT
776464 TCCTTTTGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.20, C:0.02, G:0.22, T:0.56
Consensus pattern (18 bp):
TGATTGAGATTTTGATTT
Found at i:777562 original size:24 final size:24
Alignment explanation
Indices: 777535--777580 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
777525 AAAATCTGAG
*
777535 TATTGACCAATATCAAAGTTCGGC
1 TATTGACCAAGATCAAAGTTCGGC
*
777559 TATTGACCAAGATCAAATTTCG
1 TATTGACCAAGATCAAAGTTCG
777581 AATACTGACT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (24 bp):
TATTGACCAAGATCAAAGTTCGGC
Found at i:777589 original size:24 final size:24
Alignment explanation
Indices: 777538--777589 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
777528 ATCTGAGTAT
* ** *
777538 TGACCAATATCAAAGTTCGGCTAT
1 TGACCAAGATCAAAGTTCGAATAC
*
777562 TGACCAAGATCAAATTTCGAATAC
1 TGACCAAGATCAAAGTTCGAATAC
777586 TGAC
1 TGAC
777590 TAGTACTCAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.27
Consensus pattern (24 bp):
TGACCAAGATCAAAGTTCGAATAC
Found at i:778609 original size:20 final size:20
Alignment explanation
Indices: 778566--778651 Score: 102
Period size: 20 Copynumber: 4.2 Consensus size: 20
778556 TGAAATTCAA
*
778566 TTGCGAATTTGAAATT-TAGTG
1 TTGCGAATTTG-ACTTAT-GTG
* *
778587 TTGCGAATTTTACTTTTGTG
1 TTGCGAATTTGACTTATGTG
778607 TTGCGAATTTGACTTATGTG
1 TTGCGAATTTGACTTATGTG
* *
778627 TTGTGAATTTGACTTCTGTG
1 TTGCGAATTTGACTTATGTG
778647 TTGCG
1 TTGCG
778652 GTTTACAAAT
Statistics
Matches: 57, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
20 46 0.81
21 11 0.19
ACGTcount: A:0.19, C:0.09, G:0.24, T:0.48
Consensus pattern (20 bp):
TTGCGAATTTGACTTATGTG
Found at i:778628 original size:40 final size:41
Alignment explanation
Indices: 778566--778651 Score: 113
Period size: 40 Copynumber: 2.1 Consensus size: 41
778556 TGAAATTCAA
* *
778566 TTGCGAATTTGAAATTTAGTGTTGCGAATTTTACTTTTGTG
1 TTGCGAATTTGAAATTTAGTGTTGCGAATTTGACTTCTGTG
* *
778607 TTGCGAATTTG--ACTTATGTGTTGTGAATTTGACTTCTGTG
1 TTGCGAATTTGAAATTTA-GTGTTGCGAATTTGACTTCTGTG
778647 TTGCG
1 TTGCG
778652 GTTTACAAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
39 4 0.10
40 25 0.62
41 11 0.28
ACGTcount: A:0.19, C:0.09, G:0.24, T:0.48
Consensus pattern (41 bp):
TTGCGAATTTGAAATTTAGTGTTGCGAATTTGACTTCTGTG
Found at i:778667 original size:20 final size:20
Alignment explanation
Indices: 778644--778683 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
778634 TTTGACTTCT
*
778644 GTGTTGCGGTTTACAAATTC
1 GTGTTGCGATTTACAAATTC
*
778664 GTGTTGCGATTTACATATTC
1 GTGTTGCGATTTACAAATTC
778684 ACATTGCGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.20, C:0.15, G:0.23, T:0.42
Consensus pattern (20 bp):
GTGTTGCGATTTACAAATTC
Found at i:778690 original size:20 final size:20
Alignment explanation
Indices: 778667--778733 Score: 73
Period size: 20 Copynumber: 3.3 Consensus size: 20
778657 CAAATTCGTG
* *
778667 TTGCGATTTACATATTCACA
1 TTGCGATTTACATAATCGCA
*
778687 TTGCGAATTTGA-AAAATCGCA
1 TTGCG-ATTT-ACATAATCGCA
*
778708 ATGCGATTTACATAATCGCA
1 TTGCGATTTACATAATCGCA
778728 TTGCGA
1 TTGCGA
778734 ATTTGGAAGC
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
19 1 0.03
20 22 0.58
21 14 0.37
22 1 0.03
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (20 bp):
TTGCGATTTACATAATCGCA
Found at i:779070 original size:17 final size:17
Alignment explanation
Indices: 779048--779088 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
779038 AAAAATATAT
**
779048 AATATATAATTTTTTAA
1 AATATATAATTTTAAAA
*
779065 AATATATAGTTTTAAAA
1 AATATATAATTTTAAAA
779082 AATATAT
1 AATATAT
779089 GTAGTATATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (17 bp):
AATATATAATTTTAAAA
Found at i:779122 original size:26 final size:27
Alignment explanation
Indices: 779066--779122 Score: 62
Period size: 28 Copynumber: 2.1 Consensus size: 27
779056 ATTTTTTAAA
* *
779066 ATATATAGTTTTAAAAAATATATGTAGT
1 ATATATAATTTTAAAAAATATA-GTAAT
**
779094 ATATATAATTTTTGAAAATATA-TAAT
1 ATATATAATTTTAAAAAATATAGTAAT
779120 ATA
1 ATA
779123 ATGTTGGAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
26 6 0.24
28 19 0.76
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (27 bp):
ATATATAATTTTAAAAAATATAGTAAT
Found at i:779123 original size:22 final size:22
Alignment explanation
Indices: 779096--779144 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
779086 TATGTAGTAT
* * *
779096 ATATAATTTTTGAAAATATATA
1 ATATAATGTTGGAAAACATATA
*
779118 ATATAATGTTGGAAAACGTATA
1 ATATAATGTTGGAAAACATATA
779140 ATATA
1 ATATA
779145 TAATCTAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.49, C:0.02, G:0.10, T:0.39
Consensus pattern (22 bp):
ATATAATGTTGGAAAACATATA
Found at i:779139 original size:24 final size:22
Alignment explanation
Indices: 779094--779148 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 22
779084 TATATGTAGT
* *
779094 ATATATAATTTTTGAAAATAT-
1 ATATATAATGTTGGAAAATATA
779115 ATAATATAATGTTGGAAAACGTATA
1 AT-ATATAATGTTGGAAAA--TATA
779140 ATATATAAT
1 ATATATAAT
779149 CTAATTTTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
21 2 0.07
22 14 0.50
24 10 0.36
25 2 0.07
ACGTcount: A:0.49, C:0.02, G:0.09, T:0.40
Consensus pattern (22 bp):
ATATATAATGTTGGAAAATATA
Found at i:779144 original size:29 final size:28
Alignment explanation
Indices: 779110--779168 Score: 82
Period size: 29 Copynumber: 2.1 Consensus size: 28
779100 AATTTTTGAA
*
779110 AATATATAATATAATGTTGGAAAACGTAT
1 AATATATAATATAAT-TTGGAAAACATAT
* *
779139 AATATATAATCTAATTTTGAAAACATAT
1 AATATATAATATAATTTGGAAAACATAT
779167 AA
1 AA
779169 CATACAAGGT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 13 0.48
29 14 0.52
ACGTcount: A:0.51, C:0.05, G:0.08, T:0.36
Consensus pattern (28 bp):
AATATATAATATAATTTGGAAAACATAT
Found at i:779397 original size:8 final size:9
Alignment explanation
Indices: 779380--779407 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
779370 GCAAATGATG
779380 AAAATAAAA
1 AAAATAAAA
779389 AAAATAAAA
1 AAAATAAAA
779398 AAAATAAAA
1 AAAATAAAA
779407 A
1 A
779408 GAGTTAGTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (9 bp):
AAAATAAAA
Found at i:780486 original size:3 final size:3
Alignment explanation
Indices: 780478--780503 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
780468 TCAAAGGGAA
780478 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
780504 GTTAAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:780538 original size:21 final size:22
Alignment explanation
Indices: 780514--780605 Score: 58
Period size: 25 Copynumber: 4.4 Consensus size: 22
780504 GTTAAAAAAT
780514 AAAATAAAATAAATCAAA-AGAA
1 AAAATAAAATAAATCAAAGAG-A
*
780536 AAAAGGGAAAAATAAATCAAA-AGA
1 AAAA---TAAAATAAATCAAAGAGA
780560 AAAAT---AT--ATCAAAGAGA
1 AAAATAAAATAAATCAAAGAGA
*
780577 AAAA-AAAATTAAAT-AAATAGA
1 AAAATAAAA-TAAATCAAAGAGA
780598 AAAATAAA
1 AAAATAAA
780606 TAGAAAAATA
Statistics
Matches: 56, Mismatches: 3, Indels: 22
0.69 0.04 0.27
Matches are distributed among these distances:
16 6 0.11
17 7 0.12
18 2 0.04
19 1 0.02
20 1 0.02
21 10 0.18
22 9 0.16
24 5 0.09
25 15 0.27
ACGTcount: A:0.74, C:0.03, G:0.09, T:0.14
Consensus pattern (22 bp):
AAAATAAAATAAATCAAAGAGA
Found at i:780577 original size:17 final size:17
Alignment explanation
Indices: 780537--780585 Score: 64
Period size: 16 Copynumber: 2.9 Consensus size: 17
780527 TCAAAAGAAA
*
780537 AAAGGGAAAAATAAATC
1 AAAGAGAAAAATAAATC
*
780554 AAA-AGAAAAATATATC
1 AAAGAGAAAAATAAATC
*
780570 AAAGAGAAAAAAAAAT
1 AAAGAGAAAAATAAAT
780586 TAAATAAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
16 14 0.52
17 13 0.48
ACGTcount: A:0.71, C:0.04, G:0.12, T:0.12
Consensus pattern (17 bp):
AAAGAGAAAAATAAATC
Found at i:780604 original size:12 final size:12
Alignment explanation
Indices: 780587--780615 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
780577 AAAAAAAATT
780587 AAATAAATAGAA
1 AAATAAATAGAA
780599 AAATAAATAGAA
1 AAATAAATAGAA
780611 AAATA
1 AAATA
780616 TTAACATAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.17
Consensus pattern (12 bp):
AAATAAATAGAA
Found at i:784726 original size:19 final size:19
Alignment explanation
Indices: 784704--784765 Score: 72
Period size: 19 Copynumber: 3.3 Consensus size: 19
784694 AAAAATAATT
784704 ATTAATAAATTTAATTTAA
1 ATTAATAAATTTAATTTAA
* * *
784723 ATTAATATATAT-ATATAA
1 ATTAATAAATTTAATTTAA
*
784741 TATTAATAAATTTAAATTAA
1 -ATTAATAAATTTAATTTAA
784761 ATTAA
1 ATTAA
784766 AGTATATATA
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
18 5 0.15
19 25 0.74
20 4 0.12
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
ATTAATAAATTTAATTTAA
Found at i:784745 original size:38 final size:41
Alignment explanation
Indices: 784698--784780 Score: 136
Period size: 38 Copynumber: 2.1 Consensus size: 41
784688 AATATTAAAA
*
784698 ATAATTATTAATAAATTTAATTTAAATT-AA-TATATATAT
1 ATAATTATTAATAAATTTAAATTAAATTAAAGTATATATAT
784737 ATAA-TATTAATAAATTTAAATTAAATTAAAGTATATATAT
1 ATAATTATTAATAAATTTAAATTAAATTAAAGTATATATAT
784777 ATAA
1 ATAA
784781 AGGAGATTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
38 22 0.54
39 6 0.15
40 13 0.32
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (41 bp):
ATAATTATTAATAAATTTAAATTAAATTAAAGTATATATAT
Found at i:794994 original size:22 final size:21
Alignment explanation
Indices: 794949--794994 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
794939 AAAAACTCTC
* *
794949 GAAACATAATAAACTTTTGGG
1 GAAACATAATAAACATGTGGG
*
794970 GAAACATGATAATACATGTGGG
1 GAAACATAATAA-ACATGTGGG
794992 GAA
1 GAA
794995 TATGACCAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.43, C:0.09, G:0.24, T:0.24
Consensus pattern (21 bp):
GAAACATAATAAACATGTGGG
Found at i:801680 original size:29 final size:29
Alignment explanation
Indices: 801641--801802 Score: 236
Period size: 29 Copynumber: 5.6 Consensus size: 29
801631 AGGCCAATTT
801641 TTTTTATAAATTACAATAAATATCCA-AAC
1 TTTTTATAAATTACAATAAATA-CCATAAC
* * * *
801670 TTTCTAAAAATTAAAATAAATAGCATAAC
1 TTTTTATAAATTACAATAAATACCATAAC
* *
801699 TTTTTATATATTACAATAAATACCATGAC
1 TTTTTATAAATTACAATAAATACCATAAC
801728 TTTTTATAAATTACAATAAATACCATAAC
1 TTTTTATAAATTACAATAAATACCATAAC
*
801757 TTTTTATAAATTACAATAAATACCAAAAC
1 TTTTTATAAATTACAATAAATACCATAAC
*
801786 TATTTATAAATTACAAT
1 TTTTTATAAATTACAAT
801803 CAAAGAAAAA
Statistics
Matches: 118, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
28 2 0.02
29 116 0.98
ACGTcount: A:0.49, C:0.12, G:0.01, T:0.38
Consensus pattern (29 bp):
TTTTTATAAATTACAATAAATACCATAAC
Found at i:803506 original size:10 final size:10
Alignment explanation
Indices: 803493--803519 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
803483 TAATTTTTTA
803493 TTTTAAAGAT
1 TTTTAAAGAT
803503 TTTTAAAGAT
1 TTTTAAAGAT
803513 TTTTAAA
1 TTTTAAA
803520 ATTAAATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (10 bp):
TTTTAAAGAT
Found at i:803843 original size:25 final size:21
Alignment explanation
Indices: 803778--803833 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
803768 ATTTTTGAAT
*
803778 TCTTAAGT-TATATATATAAA
1 TCTTAAATCTATATATATAAA
803798 TCTTAAATCTATATATATAAA
1 TCTTAAATCTATATATATAAA
803819 TCTTAAATCTATATA
1 TCTTAAATCTATATA
803834 CATATATAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 7 0.21
21 27 0.79
ACGTcount: A:0.45, C:0.09, G:0.02, T:0.45
Consensus pattern (21 bp):
TCTTAAATCTATATATATAAA
Found at i:807277 original size:3 final size:3
Alignment explanation
Indices: 807269--807323 Score: 60
Period size: 3 Copynumber: 18.7 Consensus size: 3
807259 AAATTTTTTA
* * *
807269 TAT TAT TA- TAT TAT TAT TAT AAT TCT TAT TAT TAT TAA TAT TAT ATAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT
807317 TA- TAT TA
1 TAT TAT TA
807324 ACCCTAAGCC
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
2 4 0.09
3 36 0.84
4 3 0.07
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:808461 original size:16 final size:15
Alignment explanation
Indices: 808438--808467 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
808428 TTTTATTCAC
808438 TAATATTTTATAATA
1 TAATATTTTATAATA
808453 TAATAATTTTATAAT
1 TAAT-ATTTTATAAT
808468 TTGATTAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TAATATTTTATAATA
Found at i:816624 original size:21 final size:20
Alignment explanation
Indices: 816584--816625 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
816574 ATCAGCTTGG
*
816584 GTTCGGATCAGGTTATTTCA
1 GTTCGGATCAGGTTAGTTCA
*
816604 GTTCGGATCAATGTTAGTTCA
1 GTTCGGATC-AGGTTAGTTCA
816625 G
1 G
816626 GTCCGAAGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.21, C:0.14, G:0.26, T:0.38
Consensus pattern (20 bp):
GTTCGGATCAGGTTAGTTCA
Found at i:817119 original size:13 final size:12
Alignment explanation
Indices: 817091--817137 Score: 55
Period size: 13 Copynumber: 4.1 Consensus size: 12
817081 TATAAGGAAT
817091 AAAT-TAATTAA
1 AAATATAATTAA
817102 AAATATAATTACA
1 AAATATAATTA-A
*
817115 AAATATAATT-T
1 AAATATAATTAA
817126 AAATA-AATTAA
1 AAATATAATTAA
817137 A
1 A
817138 CGACATATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
10 4 0.13
11 10 0.32
12 6 0.19
13 11 0.35
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (12 bp):
AAATATAATTAA
Found at i:817223 original size:20 final size:22
Alignment explanation
Indices: 817186--817225 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
817176 ATATTATATA
*
817186 ATATATGTATGATGAATGTTAC
1 ATATATATATGATGAATGTTAC
817208 ATATATATAT-AT-AATGTT
1 ATATATATATGATGAATGTT
817226 CATTACACTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 2 0.12
22 9 0.53
ACGTcount: A:0.40, C:0.03, G:0.12, T:0.45
Consensus pattern (22 bp):
ATATATATATGATGAATGTTAC
Found at i:817333 original size:2 final size:2
Alignment explanation
Indices: 817271--817318 Score: 69
Period size: 2 Copynumber: 23.5 Consensus size: 2
817261 CACACACATG
* *
817271 TA TA CA TA TA TA TGA TG TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA
817314 TA TA T
1 TA TA T
817319 GATGCATGTA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
2 39 0.95
3 2 0.05
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (2 bp):
TA
Found at i:817335 original size:8 final size:8
Alignment explanation
Indices: 817268--817335 Score: 57
Period size: 8 Copynumber: 8.5 Consensus size: 8
817258 ACTCACACAC
*
817268 ATGTATAC
1 ATGTATAT
*
817276 ATATATAT
1 ATGTATAT
817284 GATGTATAT
1 -ATGTATAT
*
817293 ATATATAT
1 ATGTATAT
*
817301 ATATATAT
1 ATGTATAT
*
817309 ATATATAT
1 ATGTATAT
**
817317 ATG-ATGC
1 ATGTATAT
817324 ATGTATAT
1 ATGTATAT
817332 ATGT
1 ATGT
817336 TACACTTAGA
Statistics
Matches: 49, Mismatches: 9, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
7 5 0.10
8 37 0.76
9 7 0.14
ACGTcount: A:0.41, C:0.03, G:0.10, T:0.46
Consensus pattern (8 bp):
ATGTATAT
Found at i:817383 original size:29 final size:29
Alignment explanation
Indices: 817327--817421 Score: 111
Period size: 29 Copynumber: 3.2 Consensus size: 29
817317 ATGATGCATG
*
817327 TATATATGTTACACTTAGATATGTATGT-
1 TATATATGTTATACTTAGATATGTATGTA
817355 TATATATGTTATACTTTAGATATGTATGTA
1 TATATATGTTATAC-TTAGATATGTATGTA
* * * * *
817385 TAATTTATGTTATACATACATATATATATA
1 T-ATATATGTTATACTTAGATATGTATGTA
817415 TATATAT
1 TATATAT
817422 AATGCATGTA
Statistics
Matches: 57, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
28 13 0.23
29 19 0.33
30 13 0.23
31 12 0.21
ACGTcount: A:0.37, C:0.05, G:0.09, T:0.48
Consensus pattern (29 bp):
TATATATGTTATACTTAGATATGTATGTA
Found at i:817386 original size:28 final size:27
Alignment explanation
Indices: 817324--817386 Score: 99
Period size: 28 Copynumber: 2.3 Consensus size: 27
817314 TATATGATGC
817324 ATGTATATATGTTACACTTAGATATGT
1 ATGTATATATGTTACACTTAGATATGT
*
817351 ATGTTATATATGTTATACTTTAGATATGT
1 ATG-TATATATGTTACAC-TTAGATATGT
817380 ATGTATA
1 ATGTATA
817387 ATTTATGTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
27 3 0.09
28 17 0.52
29 13 0.39
ACGTcount: A:0.33, C:0.05, G:0.14, T:0.48
Consensus pattern (27 bp):
ATGTATATATGTTACACTTAGATATGT
Found at i:817445 original size:19 final size:19
Alignment explanation
Indices: 817423--817459 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
817413 TATATATATA
* *
817423 ATGCATGTATATATGTACG
1 ATGCATGCATAAATGTACG
817442 ATGCATGCATAAATGTAC
1 ATGCATGCATAAATGTAC
817460 ATATATGTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.32
Consensus pattern (19 bp):
ATGCATGCATAAATGTACG
Found at i:817964 original size:21 final size:22
Alignment explanation
Indices: 817930--817971 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
817920 ACATGAAAAC
817930 TAAATTAAACTTATA-AATATT
1 TAAATTAAACTTATATAATATT
**
817951 TAAATTAATTTTATATAATAT
1 TAAATTAAACTTATATAATAT
817972 AATAAAATCG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (22 bp):
TAAATTAAACTTATATAATATT
Found at i:823120 original size:23 final size:23
Alignment explanation
Indices: 823094--823141 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
823084 TATATTCACG
823094 TAGCGTTTACTAACATGTTCATT
1 TAGCGTTTACTAACATGTTCATT
** *
823117 TAGCGTTTGTTAATATGTTCATT
1 TAGCGTTTACTAACATGTTCATT
823140 TA
1 TA
823142 ACATTATTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.25, C:0.12, G:0.15, T:0.48
Consensus pattern (23 bp):
TAGCGTTTACTAACATGTTCATT
Found at i:823152 original size:23 final size:23
Alignment explanation
Indices: 823104--823165 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
823094 TAGCGTTTAC
* *
823104 TAACATGTTCATTTAGCGTTTGT
1 TAACATGTTCATTTAACATTTGT
*
823127 TAATATGTTCATTTAACATTAT-T
1 TAACATGTTCATTTAACATT-TGT
*
823150 TAACATGTTCTTTTAA
1 TAACATGTTCATTTAA
823166 ATGTTCAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
23 32 0.97
24 1 0.03
ACGTcount: A:0.29, C:0.11, G:0.10, T:0.50
Consensus pattern (23 bp):
TAACATGTTCATTTAACATTTGT
Found at i:824783 original size:2 final size:2
Alignment explanation
Indices: 824776--824808 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
824766 TAAATAAATG
*
824776 AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
824809 AGGGGATAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:824977 original size:21 final size:21
Alignment explanation
Indices: 824951--825006 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
824941 TAATTGGGTG
*
824951 TTATATAAGCTTAAGGAAAGC
1 TTATATAAACTTAAGGAAAGC
824972 TTATATAAACTTAAGGAAAGC
1 TTATATAAACTTAAGGAAAGC
824993 TTATATAAACTTAA
1 TTATATAAACTTAA
825007 AACAATAAGA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.46, C:0.09, G:0.12, T:0.32
Consensus pattern (21 bp):
TTATATAAACTTAAGGAAAGC
Done.