Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008194.1 Hibiscus syriacus cultivar Beakdansim tig00110813_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: 2426039
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 13
Found at i:570789 original size:75 final size:76
Alignment explanation
Indices: 570618--570823 Score: 256
Period size: 74 Copynumber: 2.7 Consensus size: 76
570608 CCGTTGAACA
* * * * * *
570618 AGGGGGGAATCGGTACCCCCT-TGGGGGGGATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAA
1 AGGGGGGAATCGATTCCACCTATGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGAA
** *
570682 CAAAACTGTTT
66 CAAAACCATTC
*
570693 A-GGGGGAATCGATTCCACCTAT-GGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGAG
1 AGGGGGGAATCGATTCCACCTATGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGAA
*
570756 CCAAACCATTC
66 CAAAACCATTC
* * *
570767 AGGGGGGAATCGATTCCTCCTATGGGGGGGAATCGGTTCCCTCTGAGCAATCTGGAA
1 AGGGGGGAATCGATTCCACCTAT-GGGGGGAATCGGTTCCCTCCGAGCATTCTGGAA
570824 TTTTTGACTT
Statistics
Matches: 113, Mismatches: 14, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
74 61 0.54
75 22 0.19
77 30 0.27
ACGTcount: A:0.22, C:0.24, G:0.31, T:0.22
Consensus pattern (76 bp):
AGGGGGGAATCGATTCCACCTATGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGAA
CAAAACCATTC
Found at i:572840 original size:22 final size:21
Alignment explanation
Indices: 572815--572892 Score: 102
Period size: 22 Copynumber: 3.6 Consensus size: 21
572805 GTAAATATTT
*
572815 ATCCCGAAGGATCACTGAATAC
1 ATCCCGAAGGA-CACTGGATAC
*
572837 ATCCCGAAGAACCACTGGATAC
1 ATCCCGAAGGA-CACTGGATAC
572859 ATCCCGAAGGACAACTGGATAC
1 ATCCCGAAGGAC-ACTGGATAC
*
572881 ATCCCGGAGGAC
1 ATCCCGAAGGAC
572893 TACTATAAAC
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
21 1 0.02
22 49 0.98
ACGTcount: A:0.35, C:0.29, G:0.22, T:0.14
Consensus pattern (21 bp):
ATCCCGAAGGACACTGGATAC
Found at i:573430 original size:21 final size:21
Alignment explanation
Indices: 573404--573443 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
573394 CTTTTCATTT
573404 AGGGGGAATC-GATACCCCCCA
1 AGGGGGAATCTG-TACCCCCCA
573425 AGGGGGAATCTGTACCCCC
1 AGGGGGAATCTGTACCCCC
573444 TGCACATTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.25, C:0.33, G:0.30, T:0.12
Consensus pattern (21 bp):
AGGGGGAATCTGTACCCCCCA
Found at i:579433 original size:2 final size:2
Alignment explanation
Indices: 579426--579622 Score: 190
Period size: 2 Copynumber: 101.5 Consensus size: 2
579416 AAATACTACG
*
579426 AT AT AT AT AT AT AT AT A- AT A- AT A- AT AT AA AT ACT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT
579466 AT AT A- AT AT A- AT A- AT AT AT AT AT -T AT A- 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
579503 A- AT ACT AT A- AT A- AT AT A- AT AT AT A- AT AT AT AT AT AT ACT
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T
*
579542 AT AT AT AT AT AT ACT AT A- AT AT AT AT AT ACT AT AT AT A- AT AC
1 AT AT AT AT AT AT A-T AT AT AT AT AT AT AT A-T AT AT AT AT AT AT
579584 ACT AT AT AT AT AT AT ACT AT AT ACT AT ACT AT AT AT AT A
1 A-T AT AT AT AT AT AT A-T AT AT A-T AT A-T AT AT AT AT A
579623 ACATAAAAGG
Statistics
Matches: 167, Mismatches: 4, Indels: 48
0.76 0.02 0.22
Matches are distributed among these distances:
1 15 0.09
2 135 0.81
3 17 0.10
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:579497 original size:67 final size:65
Alignment explanation
Indices: 579412--579622 Score: 248
Period size: 67 Copynumber: 3.1 Consensus size: 65
579402 CTCTATAACA
* ** * *
579412 ATATAAATACTACGATATATATATATATATAATAATAATATAAATACTATATATATATAATATAA
1 ATATATATACTATAATATATATATATATATAATAATAATATATATA-TATATATATATACTATAA
579477 T
65 T
*
579478 AATATATATATTATAATATATATATAATACTATAATAAT-ATAATATATAATATATATATATACT
1 -ATATATATACTATAATATATATAT-ATA-TATAATAATAAT-ATATAT-ATATATATATATACT
579542 AT-AT
61 ATAAT
579546 ATATATATACTATAATATATATATACTATAT-ATAATACACTATATATATATATACTATATACTA
1 ATATATATACTATAATATATATATA-TATATAATAATA-A-TATATATATATATA-TATATACTA
*
579610 TACT
62 TAAT
579614 ATATATATA
1 ATATATATA
579623 ACATAAAAGG
Statistics
Matches: 126, Mismatches: 8, Indels: 19
0.82 0.05 0.12
Matches are distributed among these distances:
65 5 0.04
66 11 0.09
67 62 0.49
68 18 0.14
69 29 0.23
70 1 0.01
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (65 bp):
ATATATATACTATAATATATATATATATATAATAATAATATATATATATATATATATACTATAAT
Found at i:580509 original size:82 final size:79
Alignment explanation
Indices: 580317--580509 Score: 201
Period size: 79 Copynumber: 2.4 Consensus size: 79
580307 GAGTATTTTA
* * * *
580317 GGCACGATATCATTCGTCGTGAAGTTGAAGTCGTGGATGACTCATTCGTCGTGAAGTTGAGTCAA
1 GGCATGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGACTCATTCATCGTGAAGTTGAGTCAA
* *
580382 TTTCGAGTGTCTTG
66 ATTCGAATGTCTTG
* * * * * *
580396 GGCATGATATCCTTCATTGTGAAGTTGAAATCGTGGGTGACTCCTTCATTGTGAAGTTGAGTTAA
1 GGCATGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGACTCATTCATCGTGAAGTTGAGTCAA
*
580461 GATT-GAATATTCTTCTG
66 -ATTCGAAT-GTC-T-TG
*
580478 AGTCA-GATATCCTTCGTCGTGAAGTTGAAATC
1 -GGCATGATATCCTTCGTCGTGAAGTTGAAATC
580510 TAACTTGGAT
Statistics
Matches: 93, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
79 58 0.62
80 4 0.04
81 1 0.01
82 27 0.29
83 3 0.03
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.35
Consensus pattern (79 bp):
GGCATGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGACTCATTCATCGTGAAGTTGAGTCAA
ATTCGAATGTCTTG
Found at i:583346 original size:21 final size:22
Alignment explanation
Indices: 583322--583368 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
583312 CAAGTTAAAG
*
583322 AATTAAAAT-ATCAATTTGAAA
1 AATTAAAATGACCAATTTGAAA
*
583343 AATT-TAATGACCAATTTGAAA
1 AATTAAAATGACCAATTTGAAA
583364 AATTA
1 AATTA
583369 GTGAGCATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 3 0.14
21 19 0.86
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.34
Consensus pattern (22 bp):
AATTAAAATGACCAATTTGAAA
Found at i:591294 original size:22 final size:22
Alignment explanation
Indices: 591268--591345 Score: 129
Period size: 22 Copynumber: 3.5 Consensus size: 22
591258 GTAAATATTT
*
591268 ATCCCGAAGGATCACTGGATAC
1 ATCCCGAAGGACCACTGGATAC
* *
591290 GTCCCGAAGAACCACTGGATAC
1 ATCCCGAAGGACCACTGGATAC
591312 ATCCCGAAGGACCACTGGATAC
1 ATCCCGAAGGACCACTGGATAC
591334 ATCCCGAAGGAC
1 ATCCCGAAGGAC
591346 TACTATAAAC
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 51 1.00
ACGTcount: A:0.32, C:0.31, G:0.23, T:0.14
Consensus pattern (22 bp):
ATCCCGAAGGACCACTGGATAC
Found at i:591877 original size:20 final size:20
Alignment explanation
Indices: 591852--591889 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
591842 TTTTCATTTA
591852 GGGGGAATC-GATACCCCCAG
1 GGGGGAATCTG-TACCCCCAG
591872 GGGGGAATCTGTACCCCC
1 GGGGGAATCTGTACCCCC
591890 TGCACATTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 16 0.94
21 1 0.06
ACGTcount: A:0.21, C:0.32, G:0.34, T:0.13
Consensus pattern (20 bp):
GGGGGAATCTGTACCCCCAG
Found at i:602005 original size:3 final size:3
Alignment explanation
Indices: 601993--602023 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
601983 TTTCGCTCTA
601993 TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
602024 CAAACCCAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:602244 original size:18 final size:19
Alignment explanation
Indices: 602212--602258 Score: 78
Period size: 18 Copynumber: 2.5 Consensus size: 19
602202 AACCAACCAC
*
602212 AAAATCAAATCAAAACATA
1 AAAATCAAATCAAAAAATA
602231 AAAATCAAAT-AAAAAATA
1 AAAATCAAATCAAAAAATA
602249 AAAATCAAAT
1 AAAATCAAAT
602259 TTAATAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
18 17 0.63
19 10 0.37
ACGTcount: A:0.72, C:0.11, G:0.00, T:0.17
Consensus pattern (19 bp):
AAAATCAAATCAAAAAATA
Found at i:602985 original size:18 final size:19
Alignment explanation
Indices: 602953--602999 Score: 78
Period size: 18 Copynumber: 2.5 Consensus size: 19
602943 AACCAACCAC
*
602953 AAAATCAAATCAAAACATA
1 AAAATCAAATCAAAAAATA
602972 AAAATCAAAT-AAAAAATA
1 AAAATCAAATCAAAAAATA
602990 AAAATCAAAT
1 AAAATCAAAT
603000 TTAATAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
18 17 0.63
19 10 0.37
ACGTcount: A:0.72, C:0.11, G:0.00, T:0.17
Consensus pattern (19 bp):
AAAATCAAATCAAAAAATA
Found at i:603491 original size:741 final size:741
Alignment explanation
Indices: 602069--603551 Score: 2966
Period size: 741 Copynumber: 2.0 Consensus size: 741
602059 AACCCAATTA
602069 CAAGCCCTAACCTAAACCTAGCCAAACCTAACCCTAAACCTTCACCAACTTCCTGTCACTGTTAT
1 CAAGCCCTAACCTAAACCTAGCCAAACCTAACCCTAAACCTTCACCAACTTCCTGTCACTGTTAT
602134 TGCTGTCAACCATCATCGCCTTCGCTAATGAGCCTCTGACAATTGTTGATCACTTCCCTATTCCA
66 TGCTGTCAACCATCATCGCCTTCGCTAATGAGCCTCTGACAATTGTTGATCACTTCCCTATTCCA
602199 AGAAACCAACCACAAAATCAAATCAAAACATAAAAATCAAATAAAAAATAAAAATCAAATTTAAT
131 AGAAACCAACCACAAAATCAAATCAAAACATAAAAATCAAATAAAAAATAAAAATCAAATTTAAT
602264 AAAAAAATTCAACCTAACCCCCTAAAAATCCAGAGCCCCATACATTTGTCTTATTTGCCTCACCA
196 AAAAAAATTCAACCTAACCCCCTAAAAATCCAGAGCCCCATACATTTGTCTTATTTGCCTCACCA
602329 AACATCACTAAACCCGTCAATCAGGAGCAGGCAAGAGAAGATAAAGAGGGGAGCATAACCAATCT
261 AACATCACTAAACCCGTCAATCAGGAGCAGGCAAGAGAAGATAAAGAGGGGAGCATAACCAATCT
602394 AAAAGGGGAATGAGAATAAGAGAAAAAAAGGGAAAGCAGATTCGAAAGAAAAAAATGAAGGCAAT
326 AAAAGGGGAATGAGAATAAGAGAAAAAAAGGGAAAGCAGATTCGAAAGAAAAAAATGAAGGCAAT
602459 CCAACAAAAAATGAGCAAACAAGAGAAAAATCAGGCAAGATACAAAAAGAAAAAGAATCGAAAAA
391 CCAACAAAAAATGAGCAAACAAGAGAAAAATCAGGCAAGATACAAAAAGAAAAAGAATCGAAAAA
602524 GATTAAAAAAAGAAAAAGAGAGGGAGAGAAGTTTACCTCTCGACTGGTGCTATTCACCGGCGTTC
456 GATTAAAAAAAGAAAAAGAGAGGGAGAGAAGTTTACCTCTCGACTGGTGCTATTCACCGGCGTTC
602589 GAGACCTCTTTTGGCTAATCCGAACGATGGAGAAACGTCCCTCGAGCAGAAGACCAATGTACTTC
521 GAGACCTCTTTTGGCTAATCCGAACGATGGAGAAACGTCCCTCGAGCAGAAGACCAATGTACTTC
602654 AAAATCAGACCGATCCAATGGTCGGATGAGGAGATTGGCAAGTGAGAGACCAAATAATTTTCGGT
586 AAAATCAGACCGATCCAATGGTCGGATGAGGAGATTGGCAAGTGAGAGACCAAATAATTTTCGGT
602719 CGATTCATGAGAATCAAAGCGTTTTATGGCAAAACCAACGCCTAATCCGCAATCCCGACGTCAAG
651 CGATTCATGAGAATCAAAGCGTTTTATGGCAAAACCAACGCCTAATCCGCAATCCCGACGTCAAG
602784 GCGATGACGCCGATATAATTTTGGGC
716 GCGATGACGCCGATATAATTTTGGGC
602810 CAAGCCCTAACCTAAACCTAGCCAAACCTAACCCTAAACCTTCACCAACTTCCTGTCACTGTTAT
1 CAAGCCCTAACCTAAACCTAGCCAAACCTAACCCTAAACCTTCACCAACTTCCTGTCACTGTTAT
602875 TGCTGTCAACCATCATCGCCTTCGCTAATGAGCCTCTGACAATTGTTGATCACTTCCCTATTCCA
66 TGCTGTCAACCATCATCGCCTTCGCTAATGAGCCTCTGACAATTGTTGATCACTTCCCTATTCCA
602940 AGAAACCAACCACAAAATCAAATCAAAACATAAAAATCAAATAAAAAATAAAAATCAAATTTAAT
131 AGAAACCAACCACAAAATCAAATCAAAACATAAAAATCAAATAAAAAATAAAAATCAAATTTAAT
603005 AAAAAAATTCAACCTAACCCCCTAAAAATCCAGAGCCCCATACATTTGTCTTATTTGCCTCACCA
196 AAAAAAATTCAACCTAACCCCCTAAAAATCCAGAGCCCCATACATTTGTCTTATTTGCCTCACCA
603070 AACATCACTAAACCCGTCAATCAGGAGCAGGCAAGAGAAGATAAAGAGGGGAGCATAACCAATCT
261 AACATCACTAAACCCGTCAATCAGGAGCAGGCAAGAGAAGATAAAGAGGGGAGCATAACCAATCT
603135 AAAAGGGGAATGAGAATAAGAGAAAAAAAGGGAAAGCAGATTCGAAAGAAAAAAATGAAGGCAAT
326 AAAAGGGGAATGAGAATAAGAGAAAAAAAGGGAAAGCAGATTCGAAAGAAAAAAATGAAGGCAAT
603200 CCAACAAAAAATGAGCAAACAAGAGAAAAATCAGGCAAGATACAAAAAGAAAAAGAATCGAAAAA
391 CCAACAAAAAATGAGCAAACAAGAGAAAAATCAGGCAAGATACAAAAAGAAAAAGAATCGAAAAA
603265 GATTAAAAAAAGAAAAAGAGAGGGAGAGAAGTTTACCTCTCGACTGGTGCTATTCACCGGCGTTC
456 GATTAAAAAAAGAAAAAGAGAGGGAGAGAAGTTTACCTCTCGACTGGTGCTATTCACCGGCGTTC
603330 GAGACCTCTTTTGGCTAATCCGAACGATGGAGAAACGTCCCTCGAGCAGAAGACCAATGTACTTC
521 GAGACCTCTTTTGGCTAATCCGAACGATGGAGAAACGTCCCTCGAGCAGAAGACCAATGTACTTC
603395 AAAATCAGACCGATCCAATGGTCGGATGAGGAGATTGGCAAGTGAGAGACCAAATAATTTTCGGT
586 AAAATCAGACCGATCCAATGGTCGGATGAGGAGATTGGCAAGTGAGAGACCAAATAATTTTCGGT
603460 CGATTCATGAGAATCAAAGCGTTTTATGGCAAAACCAACGCCTAATCCGCAATCCCGACGTCAAG
651 CGATTCATGAGAATCAAAGCGTTTTATGGCAAAACCAACGCCTAATCCGCAATCCCGACGTCAAG
603525 GCGATGACGCCGATATAATTTTGGGC
716 GCGATGACGCCGATATAATTTTGGGC
603551 C
1 C
603552 CGAACAACCA
Statistics
Matches: 742, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
741 742 1.00
ACGTcount: A:0.41, C:0.22, G:0.18, T:0.19
Consensus pattern (741 bp):
CAAGCCCTAACCTAAACCTAGCCAAACCTAACCCTAAACCTTCACCAACTTCCTGTCACTGTTAT
TGCTGTCAACCATCATCGCCTTCGCTAATGAGCCTCTGACAATTGTTGATCACTTCCCTATTCCA
AGAAACCAACCACAAAATCAAATCAAAACATAAAAATCAAATAAAAAATAAAAATCAAATTTAAT
AAAAAAATTCAACCTAACCCCCTAAAAATCCAGAGCCCCATACATTTGTCTTATTTGCCTCACCA
AACATCACTAAACCCGTCAATCAGGAGCAGGCAAGAGAAGATAAAGAGGGGAGCATAACCAATCT
AAAAGGGGAATGAGAATAAGAGAAAAAAAGGGAAAGCAGATTCGAAAGAAAAAAATGAAGGCAAT
CCAACAAAAAATGAGCAAACAAGAGAAAAATCAGGCAAGATACAAAAAGAAAAAGAATCGAAAAA
GATTAAAAAAAGAAAAAGAGAGGGAGAGAAGTTTACCTCTCGACTGGTGCTATTCACCGGCGTTC
GAGACCTCTTTTGGCTAATCCGAACGATGGAGAAACGTCCCTCGAGCAGAAGACCAATGTACTTC
AAAATCAGACCGATCCAATGGTCGGATGAGGAGATTGGCAAGTGAGAGACCAAATAATTTTCGGT
CGATTCATGAGAATCAAAGCGTTTTATGGCAAAACCAACGCCTAATCCGCAATCCCGACGTCAAG
GCGATGACGCCGATATAATTTTGGGC
Found at i:605991 original size:189 final size:188
Alignment explanation
Indices: 605639--606133 Score: 663
Period size: 189 Copynumber: 2.6 Consensus size: 188
605629 TGCCACTAAA
** *
605639 TTTAGACATATAGCAACGTTTTTTAATAAACGCCGCAATAGATTAGTACTTTAGCGGCGTTTTGA
1 TTTAGACATATAGCGGCGTTTTTTAATAAACGCCGCAATAAATTAGTACTTTAGCGGCGTTTTGA
* * * ** * *
605704 GAAAAATGTTGTAATAGGGTTAACATATAGCGGTATTTTGATATCAAACGCCGCAAATGATTCGG
66 -AAAAAAGTCGTAATAGGGTTCACATATAGCGGCGTTTTGGTAACAAACGCCGCAAATGATTCGG
* * * * * *
605769 ACTTTAGTGGTGTTTTGATAGAAAACACCGCAAATGTTTTTTATTTAAACGTCATTAAC
130 ACATTAGAGGCGTTTTGATACAAAAAACCGCAAATGTATTTTATTTAAACGTCATTAAC
* * * * *
605828 TTTAGACATATAGCGGGGGTTTTTAATAAACGCCACAAAAAATTAATACTTTAGCGGCGTTTTGA
1 TTTAGACATATAGCGGCGTTTTTTAATAAACGCCGCAATAAATTAGTACTTTAGCGGCGTTTTGA
* *
605893 CAAAAAAGTCGTAATAGGGTTCACATATAACGGCGTTTTGGTAACAAACGCCGCAAATGATTCGT
66 -AAAAAAGTCGTAATAGGGTTCACATATAGCGGCGTTTTGGTAACAAACGCCGCAAATGATTCGG
605958 ACATTAGAGGCG-TTT-ATACAAAAAATGCCGCAAATGTATTTTATTTAAACGTCATTAAC
130 ACATTAGAGGCGTTTTGATACAAAAAA--CCGCAAATGTATTTTATTTAAACGTCATTAAC
*
606017 TTTAGACATATAGCGGCGTTTTTTAATAAACGCCGCAATAAATTAGTACTTTAGCAGCGTTTTGA
1 TTTAGACATATAGCGGCGTTTTTTAATAAACGCCGCAATAAATTAGTACTTTAGCGGCGTTTTGA
* * * *
606082 AAAAAACGCCGCAATA-GGTTACACATATAGCGGCGTTGTAGTAACAAACGCC
66 AAAAAA-GTCGTAATAGGGTT-CACATATAGCGGCGTTTTGGTAACAAACGCC
606134 ATACATTAAC
Statistics
Matches: 267, Mismatches: 35, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
187 8 0.03
188 13 0.05
189 246 0.92
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (188 bp):
TTTAGACATATAGCGGCGTTTTTTAATAAACGCCGCAATAAATTAGTACTTTAGCGGCGTTTTGA
AAAAAAGTCGTAATAGGGTTCACATATAGCGGCGTTTTGGTAACAAACGCCGCAAATGATTCGGA
CATTAGAGGCGTTTTGATACAAAAAACCGCAAATGTATTTTATTTAAACGTCATTAAC
Found at i:606118 original size:41 final size:42
Alignment explanation
Indices: 606018--606118 Score: 109
Period size: 41 Copynumber: 2.5 Consensus size: 42
606008 GTCATTAACT
** *
606018 TTAG-ACATATAGCGGCGTTTTTTAATAAACGCCGCAATAAA
1 TTAGCACATATAGCGGCGTTTTGAAAAAAACGCCGCAATAAA
* * * **
606059 TTAGTAC-TTTAGCAGCGTTTTGAAAAAAACGCCGCAATAGG
1 TTAGCACATATAGCGGCGTTTTGAAAAAAACGCCGCAATAAA
606100 TTA-CACATATAGCGGCGTT
1 TTAGCACATATAGCGGCGTT
606119 GTAGTAACAA
Statistics
Matches: 48, Mismatches: 10, Indels: 4
0.77 0.16 0.06
Matches are distributed among these distances:
40 2 0.04
41 44 0.92
42 2 0.04
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.29
Consensus pattern (42 bp):
TTAGCACATATAGCGGCGTTTTGAAAAAAACGCCGCAATAAA
Found at i:615114 original size:21 final size:21
Alignment explanation
Indices: 615090--615130 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
615080 AGAAGTAGAG
615090 AGAGCAACAGCAGAAGCAGCC
1 AGAGCAACAGCAGAAGCAGCC
* *
615111 AGAGCAGCAGCGGAAGCAGC
1 AGAGCAACAGCAGAAGCAGC
615131 GACAGCACAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.39, C:0.27, G:0.34, T:0.00
Consensus pattern (21 bp):
AGAGCAACAGCAGAAGCAGCC
Found at i:615137 original size:21 final size:21
Alignment explanation
Indices: 615092--615137 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
615082 AAGTAGAGAG
*
615092 AGCAACAGCAGAAGCAGCCAG
1 AGCAACAGCAGAAGCAGCCAC
* * *
615113 AGCAGCAGCGGAAGCAGCGAC
1 AGCAACAGCAGAAGCAGCCAC
615134 AGCA
1 AGCA
615138 CAGAGAGAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.39, C:0.28, G:0.33, T:0.00
Consensus pattern (21 bp):
AGCAACAGCAGAAGCAGCCAC
Found at i:615147 original size:21 final size:22
Alignment explanation
Indices: 615101--615149 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
615091 GAGCAACAGC
* *
615101 AGAAGCAGCCAGAGCAGCAGCG
1 AGAAGCAGCCACAGCAGCAGAG
*
615123 -GAAGCAGCGACAGCA-CAGAG
1 AGAAGCAGCCACAGCAGCAGAG
615143 AGAAGCA
1 AGAAGCA
615150 TCATATAAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.41, C:0.24, G:0.35, T:0.00
Consensus pattern (22 bp):
AGAAGCAGCCACAGCAGCAGAG
Found at i:615655 original size:43 final size:43
Alignment explanation
Indices: 615546--615698 Score: 125
Period size: 43 Copynumber: 3.6 Consensus size: 43
615536 TACAGACCTT
* *
615546 AACGCCG-TAAAACATCAATACCTATTACGGCGTTTGTGAGAAA
1 AACGCCGCT-AAACATCAATACCTACTACGACGTTTGTGAGAAA
* * * *
615589 AACACCGCAAAATATCAATACCTACTACGACGTTT-TAGATAAA
1 AACGCCGCTAAACATCAATACCTACTACGACGTTTGT-GAGAAA
* * * * *
615632 AACGCCGCTAAACATC-ATAACCTATTGCGGCGATTGTCTA-AAA
1 AACGCCGCTAAACATCAAT-ACCTACTACGACGTTTGT-GAGAAA
* *
615675 AACGCCGCTAAATATCAACACCTA
1 AACGCCGCTAAACATCAATACCTA
615699 TTGCAGCATT
Statistics
Matches: 88, Mismatches: 17, Indels: 10
0.77 0.15 0.09
Matches are distributed among these distances:
42 3 0.03
43 82 0.93
44 3 0.03
ACGTcount: A:0.39, C:0.25, G:0.14, T:0.22
Consensus pattern (43 bp):
AACGCCGCTAAACATCAATACCTACTACGACGTTTGTGAGAAA
Found at i:617818 original size:17 final size:17
Alignment explanation
Indices: 617796--617828 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
617786 TTAATAAAAG
617796 CATGATGGGGTAGGTAC
1 CATGATGGGGTAGGTAC
*
617813 CATGATTGGGTAGGTA
1 CATGATGGGGTAGGTA
617829 TTATACTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.09, G:0.39, T:0.27
Consensus pattern (17 bp):
CATGATGGGGTAGGTAC
Found at i:618480 original size:20 final size:20
Alignment explanation
Indices: 618432--618497 Score: 78
Period size: 20 Copynumber: 3.3 Consensus size: 20
618422 ATTGCATTCA
*
618432 CATTTGCATCTTTACAGTTG
1 CATTTGCATCTTTACATTTG
*
618452 CATTCGCATCTTTACATTTG
1 CATTTGCATCTTTACATTTG
** * *
618472 TGTTTGCATCTTTGCATTGG
1 CATTTGCATCTTTACATTTG
618492 CATTTG
1 CATTTG
618498 TATTCGTATT
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.47
Consensus pattern (20 bp):
CATTTGCATCTTTACATTTG
Found at i:622111 original size:54 final size:54
Alignment explanation
Indices: 621875--622428 Score: 557
Period size: 54 Copynumber: 10.1 Consensus size: 54
621865 CCAAACAATA
* * * * *
621875 TGATGTTTTCAAATGATTTTTTTAAAGAATCTAAGCTTAATTTTTGGGGGTTTCT
1 TGATGTTTTCAAATGA-ATTTTGAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCT
* * * * * * * *
621930 TGATGATAACTAT-AAATGGATTTTTAAAGAATCTAAGCTTGATTTTCAGTGGTTTCT
1 TGATG-T---TTTCAAATGAATTTTGAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCT
* * *
621987 TGATGATTACTTCAAATGAATTTTGAAAGAATCTAAGCCTAA-TTTTAAGGGTTTAT
1 TGATG-TT--TTCAAATGAATTTTGAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCT
* * *
622043 TGATGTTTAT-AAATGGATTTTGAAAAAAGTTAAGCCTAATTTTTAGGGGTTTCT
1 TGATGTTT-TCAAATGAATTTTGAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCT
*
622097 TGATGTTTTCAAATGAATGTTT-AAATG-AGCTAAGCCTAATTTTTAGGGGTGTCT
1 TGATGTTTTCAAATGAAT-TTTGAAA-GAAGCTAAGCCTAATTTTTAGGGGTTTCT
* *
622151 TGATGTTTTCAAATGAATGTTT-AAAGGAGCTAAGCCTAATTTTTAAGGGTTTCT
1 TGATGTTTTCAAATGAAT-TTTGAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCT
* *
622205 TGATGTTTTCAAATGAATTTTGAAAGAAACTAAGCCTAATTTTTAGGGGTTTCC
1 TGATGTTTTCAAATGAATTTTGAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCT
* *
622259 TGATGTTTTCAAATGAATGTTT-AAAGGAGCTAAGCCTAAATTTTAGGGGTTTCT
1 TGATGTTTTCAAATGAAT-TTTGAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCT
* * * * * * *
622313 TAATGTTTACAAATGGATTTGGAAATG-AGCTAAGCTTGATTTTCAGGGGTTTCT
1 TGATGTTTTCAAATGAATTTTGAAA-GAAGCTAAGCCTAATTTTTAGGGGTTTCT
* * * * *
622367 TAATGATTACTTCAAATGAATTTTTAAAGAAGATAAGCCTAATTTTTAAGGGTTTCA
1 TGATG-TT--TTCAAATGAATTTTGAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCT
622424 TGATG
1 TGATG
622429 ATAATTGTAA
Statistics
Matches: 423, Mismatches: 55, Indels: 40
0.82 0.11 0.08
Matches are distributed among these distances:
53 33 0.08
54 245 0.58
55 16 0.04
56 18 0.04
57 104 0.25
58 5 0.01
59 2 0.00
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (54 bp):
TGATGTTTTCAAATGAATTTTGAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCT
Found at i:623754 original size:15 final size:15
Alignment explanation
Indices: 623734--623765 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
623724 ATTCAAAGAG
623734 TTAATAAAGGTTTCA
1 TTAATAAAGGTTTCA
623749 TTAATAAAGGTTTCA
1 TTAATAAAGGTTTCA
623764 TT
1 TT
623766 TCAGGATTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.06, G:0.12, T:0.44
Consensus pattern (15 bp):
TTAATAAAGGTTTCA
Found at i:624718 original size:280 final size:280
Alignment explanation
Indices: 623790--624928 Score: 1369
Period size: 280 Copynumber: 4.1 Consensus size: 280
623780 AAAAATATGA
* *
623790 GAAGAACTTGTTCAACCTTAGCTCAATTCCATTACATAAAGAGTTGGAACAACATCGACCTTGGC
1 GAAGAACTTGTTCAACCTTAGCTCAATTCCATCACATAAAGAGTTGGAACAACACCGACCTTGGC
* * * *
623855 TCTTCCATCGTATAAGGAGTTGGATAAACATCATCACTTTGTTCGAATCCATCACAGAAGGAGGT
66 TCATCCATCGCATAAGGAGTTGGATCAGCATCATCACTTTGTTCGAATCCATCACAGAAGGAGGT
* * * *
623920 GGATAAATATTTCAAATGAAGAAGTTCTTAATGAGAAGAACTTGTTCAACATTTCACT--ATTTC
131 GGATCAACATTTCCAATGAAGAAGTTCCTAATGAGAAGAACTTGTTCAACATTTCACTCGA-TTC
* * * * *
623983 TATCATAGAATGAGGTGGATCAACATTTCCAATAGAAGAG-T-ATAATAAGAAAAATTCATTCAA
195 TATCACAGAATGAGGTGGATCAACATTTCCAATAGAAG-GTTCATAATGAGAATAACTCATCCAA
*
624046 TGAGGGAGAAGAAATTCATAAT
259 TGAGGGAGAAGAAGTTCATAAT
* ** * * * * * *
624068 GAGAAGAACTTGTTCAACCTTAGCTCAATTACATCGTATAAGGAGTTGAAATAATATCGACATTG
1 --GAAGAACTTGTTCAACCTTAGCTCAATTCCATCACATAAAGAGTTGGAACAACACCGACCTTG
* * * *
624133 GCTCATCCATCGCATAAGGAGTTGGATCAGCA-CATCACTTTGTTTGAATCTATCACAAAAGGAC
64 GCTCATCCATCGCATAAGGAGTTGGATCAGCATCATCACTTTGTTCGAATCCATCACAGAAGGAG
* * * *
624197 GTGGATCAACATTTCCAATGAAGAAGTTCCTAATAAGAAAAACTTGTTCAATATTTCACTTGATT
129 GTGGATCAACATTTCCAATGAAGAAGTTCCTAATGAGAAGAACTTGTTCAACATTTCACTCGATT
* * * * * * * *
624262 CCATCATA-AAGGAGGTAGATTAACATTTCCCATAGAAGGGTCAGTAATGAG-ATGAACTCACCC
194 CTATCACAGAATGAGGTGGATCAACATTTCCAATAGAAGGTTCA-TAATGAGAAT-AACTCATCC
* * *
624325 GATAAGGGAGAAAAAGTTCATAAT
257 AATGAGGGAGAAGAAGTTCATAAT
* * *
624349 GAGAAGAACTTGTTCAACCTTAGTTCGATTCCATCACATAAAAAGTTGGAACAACACCGACCTTG
1 --GAAGAACTTGTTCAACCTTAGCTCAATTCCATCACATAAAGAGTTGGAACAACACCGACCTTG
* * * * *
624414 GCTCATCCATCGTATAAAGAGTTGGATCAGTATCATTACTTTGTTCAAATCCATCACAGAAGGAG
64 GCTCATCCATCGCATAAGGAGTTGGATCAGCATCATCACTTTGTTCGAATCCATCACAGAAGGAG
624479 GTGGATCAACATTTCCAATGAAGAAGTTCCTAATGAGAAGAACTTGTTCAACATTTCACTCGATT
129 GTGGATCAACATTTCCAATGAAGAAGTTCCTAATGAGAAGAACTTGTTCAACATTTCACTCGATT
* * * * * *
624544 TTATCACAGAATGAGGTGGACCAACTTTTACAATGGAATGGTTCGTAATGAGAATAACTCATCCA
194 CTATCACAGAATGAGGTGGATCAACATTTCCAATAGAA-GGTTCATAATGAGAATAACTCATCCA
624609 ATGAGGGAGAAGAAGTTCATAAT
258 ATGAGGGAGAAGAAGTTCATAAT
* * * * *
624632 -AAGAACTTGTTCAAACTTAGCTCGATTCCATCACATGAGGAGTTGGAACAGCACCGACCTTGGC
1 GAAGAACTTGTTCAACCTTAGCTCAATTCCATCACATAAAGAGTTGGAACAACACCGACCTTGGC
* ** * *
624696 TCATCTATCGCATAAGGAGTTGGATTTGCATTATCACTTTATTCGAATCCATCACAGAAGGAGGT
66 TCATCCATCGCATAAGGAGTTGGATCAGCATCATCACTTTGTTCGAATCCATCACAGAAGGAGGT
* ** * * *
624761 GAATCAGTATTTCGAATAAAGAAGTTCCTAATGAGAAGAACTTATTCAACATTTCACTCGATTCT
131 GGATCAACATTTCCAATGAAGAAGTTCCTAATGAGAAGAACTTGTTCAACATTTCACTCGATTCT
* * * **
624826 ATAACAGAATGAGGTGGATCAACATTTCCAATGGAAGGATTTATAATGAGAA-AATCTCATCCGC
196 ATCACAGAATGAGGTGGATCAACATTTCCAATAGAAGG-TTCATAATGAGAATAA-CTCATCCAA
*
624890 TGAGGGAGAAGAAGTTCCTAAT
259 TGAGGGAGAAGAAGTTCATAAT
*
624912 GAGAAGAACTTATTCAA
1 --GAAGAACTTGTTCAA
624929 TATTTCACTT
Statistics
Matches: 731, Mismatches: 113, Indels: 27
0.84 0.13 0.03
Matches are distributed among these distances:
278 1 0.00
279 112 0.15
280 335 0.46
281 115 0.16
282 92 0.13
283 70 0.10
284 6 0.01
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (280 bp):
GAAGAACTTGTTCAACCTTAGCTCAATTCCATCACATAAAGAGTTGGAACAACACCGACCTTGGC
TCATCCATCGCATAAGGAGTTGGATCAGCATCATCACTTTGTTCGAATCCATCACAGAAGGAGGT
GGATCAACATTTCCAATGAAGAAGTTCCTAATGAGAAGAACTTGTTCAACATTTCACTCGATTCT
ATCACAGAATGAGGTGGATCAACATTTCCAATAGAAGGTTCATAATGAGAATAACTCATCCAATG
AGGGAGAAGAAGTTCATAAT
Found at i:624991 original size:119 final size:119
Alignment explanation
Indices: 624779--625048 Score: 416
Period size: 119 Copynumber: 2.3 Consensus size: 119
624769 ATTTCGAATA
*
624779 AAGAAGTTCCTAATGAGAAGAACTTATTCAACATTTCACTCGATTCTATAACAGAATGAGGTGGA
1 AAGAAGTTCCTAATGAGAAGAACTTATTCAACATTTCACTCGATTCCATAACAGAATGAGGTGGA
* *
624844 TCAACATTTCCAATGGAAGGATTTATAATGAGAA-AATCTCATCCGCTGAGGGAG
66 TCAACATTTCCAATGGAAGGATTCATAATGAGAATAA-CTCATCCGATGAGGGAG
* * *
624898 AAGAAGTTCCTAATGAGAAGAACTTATTCAATATTTCACTTGATTCCATCACAGAATGAGGTGGA
1 AAGAAGTTCCTAATGAGAAGAACTTATTCAACATTTCACTCGATTCCATAACAGAATGAGGTGGA
* * * *
624963 TCAATATTTCCAATGGAAGGGTTCATAATGAGAATAACTCATCTGATGTGGGAG
66 TCAACATTTCCAATGGAAGGATTCATAATGAGAATAACTCATCCGATGAGGGAG
* *
625017 AAGAAGTTCATAATGAGAAGAACTTGTTCAAC
1 AAGAAGTTCCTAATGAGAAGAACTTATTCAAC
625049 CTTAACTCGA
Statistics
Matches: 137, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
119 135 0.99
120 2 0.01
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.28
Consensus pattern (119 bp):
AAGAAGTTCCTAATGAGAAGAACTTATTCAACATTTCACTCGATTCCATAACAGAATGAGGTGGA
TCAACATTTCCAATGGAAGGATTCATAATGAGAATAACTCATCCGATGAGGGAG
Found at i:625589 original size:10 final size:11
Alignment explanation
Indices: 625566--625600 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
625556 AATTACAAGC
*
625566 CCTAACATAAA
1 CCTAACCTAAA
625577 CCTAACC-AAA
1 CCTAACCTAAA
625587 CCTAACCTAAA
1 CCTAACCTAAA
625598 CCT
1 CCT
625601 TCATCAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 10 0.45
11 12 0.55
ACGTcount: A:0.46, C:0.37, G:0.00, T:0.17
Consensus pattern (11 bp):
CCTAACCTAAA
Found at i:625739 original size:18 final size:18
Alignment explanation
Indices: 625707--625760 Score: 72
Period size: 19 Copynumber: 2.9 Consensus size: 18
625697 AACCAACCAC
*
625707 AAAATCAAATCAAAACATA
1 AAAATCAAAT-AAAAAATA
*
625726 AAAATCAAATAAAAAATC
1 AAAATCAAATAAAAAATA
625744 AAAATCAAATTAAAAAA
1 AAAATCAAA-TAAAAAA
625761 AATCAACCTA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
18 15 0.47
19 17 0.53
ACGTcount: A:0.72, C:0.11, G:0.00, T:0.17
Consensus pattern (18 bp):
AAAATCAAATAAAAAATA
Found at i:626422 original size:10 final size:10
Alignment explanation
Indices: 626393--626422 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
626383 AAAAAAAGGA
626393 AAAAAGAATG
1 AAAAAGAATG
626403 AAAGAAGAATG
1 AAA-AAGAATG
626414 AAAAAGAAT
1 AAAAAGAAT
626423 AGCTAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.70, C:0.00, G:0.20, T:0.10
Consensus pattern (10 bp):
AAAAAGAATG
Found at i:627409 original size:21 final size:21
Alignment explanation
Indices: 627367--627409 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
627357 TTTCTGGGCT
* * *
627367 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
627388 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
627409 A
1 A
627410 ACGAACCAGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:627482 original size:23 final size:22
Alignment explanation
Indices: 627438--627482 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
627428 AATGTCAAAG
*
627438 GGGAACCGATACCCCCACAGGA
1 GGGAACCGATACCCCCAAAGGA
*
627460 GGGAACCGATTCCCCCTAAAGGA
1 GGGAACCGATACCCCC-AAAGGA
627483 AGAAATGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.31, C:0.33, G:0.27, T:0.09
Consensus pattern (22 bp):
GGGAACCGATACCCCCAAAGGA
Found at i:629059 original size:23 final size:23
Alignment explanation
Indices: 629014--629059 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
629004 ACATTTTATA
* *
629014 TGGCACTTCGGTGTAATTCTACG
1 TGGCACTTCGGTGCAATTATACG
* *
629037 TGGCACTTTGGTGCATTTATACG
1 TGGCACTTCGGTGCAATTATACG
629060 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.17, C:0.20, G:0.26, T:0.37
Consensus pattern (23 bp):
TGGCACTTCGGTGCAATTATACG
Found at i:633424 original size:65 final size:64
Alignment explanation
Indices: 633303--633426 Score: 155
Period size: 62 Copynumber: 1.9 Consensus size: 64
633293 AGGAATTAAC
* * *
633303 AAAAAATGTTAAAAGAAAAAATAAAGAAAATATTACATTTTAGAAGAAAATAAAATATAAAATAT
1 AAAAAATGTT-AAAGAAAAAATAAAGAAAATATTAAATTTTAAAAGAAAAAAAAATATAAAATAT
* *
633368 AAAAAATGTT-AAGAGAAAATAAA-AAAGTATTAAATTTTAAAAGAAATAAAATAA-ATAAA
1 AAAAAATGTTAAAGAAAAAATAAAGAAAATATTAAATTTTAAAAGAAA-AAAA-AATATAAA
633427 TAATTTAAAG
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
62 20 0.38
63 20 0.38
64 2 0.04
65 10 0.19
ACGTcount: A:0.67, C:0.01, G:0.08, T:0.24
Consensus pattern (64 bp):
AAAAAATGTTAAAGAAAAAATAAAGAAAATATTAAATTTTAAAAGAAAAAAAAATATAAAATAT
Found at i:634607 original size:3 final size:3
Alignment explanation
Indices: 634594--634643 Score: 50
Period size: 3 Copynumber: 16.0 Consensus size: 3
634584 TGTTAAAATT
634594 TAA TAAA TAA TAA TAA TAA TAA TAA T-A TAA CCTAA TATA TAA -AA TAA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA --TAA TA-A TAA TAA TAA
634641 TAA
1 TAA
634644 AATGAAATAA
Statistics
Matches: 41, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
2 4 0.10
3 28 0.68
4 6 0.15
5 3 0.07
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:634723 original size:14 final size:13
Alignment explanation
Indices: 634693--634729 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
634683 TATATTAATA
*
634693 TTTTCAAAAATCG
1 TTTTCAAAAACCG
634706 TTTTCAAAAACCG
1 TTTTCAAAAACCG
*
634719 TTTTTAAAAAC
1 TTTTCAAAAAC
634730 TATATTATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.41, C:0.16, G:0.05, T:0.38
Consensus pattern (13 bp):
TTTTCAAAAACCG
Found at i:634765 original size:35 final size:35
Alignment explanation
Indices: 634705--634962 Score: 173
Period size: 33 Copynumber: 7.4 Consensus size: 35
634695 TTCAAAAATC
*
634705 GTTTTCAAAAACCGTTTTTAAAAACTATAT-TATATAT
1 GTTTTC-AAAACC-TATTTAAAAACTATATAT-TATAT
* * *
634742 GTTTTCAAAACCGATTTAAAAACTATATACTATAC
1 GTTTTCAAAACCTATTTAAAAACTATATATTATAT
* * * * * *
634777 GTTTTTAAAA-TTATTTTAAAA-TCTATA-GACA-
1 GTTTTCAAAACCTATTTAAAAACTATATATTATAT
* *
634808 -TTTTCAAAA-TTATTTTAAAAAC--CATATTATAT
1 GTTTTCAAAACCTA-TTTAAAAACTATATATTATAT
*
634840 GTTTTCAAAA-TTATTTTAAAAAACTATATATTATAT
1 GTTTTCAAAACCTA-TTT-AAAAACTATATATTATAT
*
634876 GTTTTCAAAACC--TTTAAAAACTATATATTATAC
1 GTTTTCAAAACCTATTTAAAAACTATATATTATAT
*
634909 GTTTTCAAAACTTATTTTTTAATAAAACTATATATTATAT
1 GTTTTCAAAACCTA---TTT-A-AAAACTATATATTATAT
* *
634949 -ATTTCAAAAACTAT
1 GTTTTCAAAACCTAT
634963 ATTTATTATA
Statistics
Matches: 180, Mismatches: 24, Indels: 35
0.75 0.10 0.15
Matches are distributed among these distances:
30 14 0.08
31 9 0.05
32 2 0.01
33 49 0.27
34 17 0.09
35 27 0.15
36 26 0.14
37 6 0.03
38 3 0.02
39 11 0.06
40 16 0.09
ACGTcount: A:0.43, C:0.10, G:0.03, T:0.43
Consensus pattern (35 bp):
GTTTTCAAAACCTATTTAAAAACTATATATTATAT
Found at i:647331 original size:24 final size:24
Alignment explanation
Indices: 647277--647371 Score: 84
Period size: 24 Copynumber: 4.0 Consensus size: 24
647267 ATTTCCGACT
* * *
647277 TGAATTCTGTTCTGA-TACATGACC
1 TGAATTCTGTTTTGATTTC-TGATC
* *
647301 TAAATTCTGTTCTGATTTCTGATC
1 TGAATTCTGTTTTGATTTCTGATC
* * *
647325 TGGATTCTGTTTTGATATCTGTTC
1 TGAATTCTGTTTTGATTTCTGATC
* *
647349 TGAATTTTGTTTTGATTTATGAT
1 TGAATTCTGTTTTGATTTCTGAT
647372 ATCTCCGTTT
Statistics
Matches: 57, Mismatches: 13, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
24 55 0.96
25 2 0.04
ACGTcount: A:0.20, C:0.13, G:0.17, T:0.51
Consensus pattern (24 bp):
TGAATTCTGTTTTGATTTCTGATC
Found at i:650675 original size:18 final size:19
Alignment explanation
Indices: 650638--650678 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
650628 GTTTTAATGC
*
650638 AAAAATTAAAAGTTATATT
1 AAAAATTAAAAGTTAGATT
*
650657 AAAAATTAAAA-TTCGATT
1 AAAAATTAAAAGTTAGATT
650675 AAAA
1 AAAA
650679 TTGCCCCTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (19 bp):
AAAAATTAAAAGTTAGATT
Found at i:650801 original size:14 final size:14
Alignment explanation
Indices: 650784--650812 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
650774 GTTAAAATTA
650784 AAAATAAAGAAAAT
1 AAAATAAAGAAAAT
650798 AAAATAAAGAAAAT
1 AAAATAAAGAAAAT
650812 A
1 A
650813 TTACATTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.79, C:0.00, G:0.07, T:0.14
Consensus pattern (14 bp):
AAAATAAAGAAAAT
Found at i:651721 original size:62 final size:66
Alignment explanation
Indices: 651655--651814 Score: 229
Period size: 62 Copynumber: 2.4 Consensus size: 66
651645 TCAAAACTGG
* *
651655 TTTAAAAACTATACTATATGTTTTCAAATTTA-TTTAAAAA-C-TA-TATACATTTTCAAAATTA
1 TTTAAAAACTATATTATATGTTTTCAAAATTATTTTAAAAACCATATTATACATTTTCAAAATTA
651716 T
66 T
**
651717 TTTAAAAACTATATTATATGTTTTCAAAATTATTTTAAAAACCATATTATATGTTTTCAAAATTA
1 TTTAAAAACTATATTATATGTTTTCAAAATTATTTTAAAAACCATATTATACATTTTCAAAATTA
651782 T
66 T
651783 TTTAAAAAACTATATATTATATGTTTTCAAAA
1 TTT-AAAAAC--TATATTATATGTTTTCAAAA
651815 CCGTTTTAAA
Statistics
Matches: 87, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
62 30 0.34
63 8 0.09
64 1 0.01
65 2 0.02
66 20 0.23
67 6 0.07
69 20 0.23
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.46
Consensus pattern (66 bp):
TTTAAAAACTATATTATATGTTTTCAAAATTATTTTAAAAACCATATTATACATTTTCAAAATTA
T
Found at i:651745 original size:95 final size:99
Alignment explanation
Indices: 651619--651798 Score: 260
Period size: 95 Copynumber: 1.9 Consensus size: 99
651609 CAAAAACAAT
* * * * *
651619 TTTTAAAAAACTATATTATTTTTTTTTCAAAACTGGTTTAAAAACTATACTATATGTTTTCAAAT
1 TTTTAAAAAACTATATTATTATGTTTTCAAAACTAGTTTAAAAACCATACTATATGTTTTCAAAA
651684 TTA-TTT-AAAAACTATATACATTTTCAAAATTA
66 TTATTTTAAAAAACTATATACATTTTCAAAATTA
* * *
651716 TTTT-AAAAACTATATTA-TATGTTTTCAAAATTATTTTAAAAACCATATTATATGTTTTCAAAA
1 TTTTAAAAAACTATATTATTATGTTTTCAAAACTAGTTTAAAAACCATACTATATGTTTTCAAAA
651779 TTATTTTAAAAAACTATATA
66 TTATTTTAAAAAACTATATA
651799 TTATATGTTT
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
95 41 0.56
96 16 0.22
97 16 0.22
ACGTcount: A:0.43, C:0.08, G:0.03, T:0.46
Consensus pattern (99 bp):
TTTTAAAAAACTATATTATTATGTTTTCAAAACTAGTTTAAAAACCATACTATATGTTTTCAAAA
TTATTTTAAAAAACTATATACATTTTCAAAATTA
Found at i:651746 original size:33 final size:33
Alignment explanation
Indices: 651619--651863 Score: 264
Period size: 33 Copynumber: 7.3 Consensus size: 33
651609 CAAAAACAAT
* * * *
651619 TTTTAAAAAACTATATTATTTTTTTTTCAAAACTG
1 TTTT-AAAAACTATATTA-TATGTTTTCAAAATTA
* * *
651654 GTTTAAAAACTATACTATATGTTTTCAAATTTA
1 TTTTAAAAACTATATTATATGTTTTCAAAATTA
*
651687 -TTTAAAAACTATA-TACA--TTTTCAAAATTA
1 TTTTAAAAACTATATTATATGTTTTCAAAATTA
651716 TTTTAAAAACTATATTATATGTTTTCAAAATTA
1 TTTTAAAAACTATATTATATGTTTTCAAAATTA
*
651749 TTTTAAAAACCATATTATATGTTTTCAAAATTA
1 TTTTAAAAACTATATTATATGTTTTCAAAATTA
***
651782 TTTTAAAAAACTATATATTATATGTTTTCAAAACCG
1 TTTT-AAAAAC--TATATTATATGTTTTCAAAATTA
* *
651818 TTTTAAAATCTATATACTATATGTTTTCAAAATTG
1 TTTTAAAAACTATAT--TATATGTTTTCAAAATTA
*
651853 TTTTCAAAACT
1 TTTTAAAAACT
651864 GTTTTCAAAA
Statistics
Matches: 181, Mismatches: 20, Indels: 18
0.83 0.09 0.08
Matches are distributed among these distances:
29 11 0.06
30 13 0.07
31 6 0.03
32 13 0.07
33 64 0.35
34 18 0.10
35 33 0.18
36 23 0.13
ACGTcount: A:0.41, C:0.09, G:0.04, T:0.46
Consensus pattern (33 bp):
TTTTAAAAACTATATTATATGTTTTCAAAATTA
Found at i:651822 original size:69 final size:67
Alignment explanation
Indices: 651655--651863 Score: 232
Period size: 69 Copynumber: 3.1 Consensus size: 67
651645 TCAAAACTGG
* *** *
651655 TTTAAAAACTATACTATATGTTTTCAAATTTA-TTTAAAAA-C-TATATACA--TTTTCAAAATT
1 TTTAAAAACTATATTATATGTTTTCAAAACCATTTTAAAAACCATATATATATGTTTTCAAAATT
651715 AT
66 AT
**
651717 TTTAAAAACTATATTATATGTTTTCAAAATTATTTTAAAAACCATAT-TATATGTTTTCAAAATT
1 TTTAAAAACTATATTATATGTTTTCAAAACCATTTTAAAAACCATATATATATGTTTTCAAAATT
651781 AT
66 AT
* * *
651783 TTTAAAAAACTATATATTATATGTTTTCAAAACCGTTTTAAAATCTATATACTATATGTTTTCAA
1 TTT-AAAAAC--TATATTATATGTTTTCAAAACCATTTTAAAAACCATATA-TATATGTTTTCAA
*
651848 AATTGT
62 AATTAT
*
651854 TTTCAAAACT
1 TTTAAAAACT
651864 GTTTTCAAAA
Statistics
Matches: 127, Mismatches: 10, Indels: 14
0.84 0.07 0.09
Matches are distributed among these distances:
62 30 0.24
63 8 0.06
64 4 0.03
65 3 0.02
66 16 0.13
67 6 0.05
68 1 0.01
69 33 0.26
70 5 0.04
71 21 0.17
ACGTcount: A:0.42, C:0.10, G:0.03, T:0.45
Consensus pattern (67 bp):
TTTAAAAACTATATTATATGTTTTCAAAACCATTTTAAAAACCATATATATATGTTTTCAAAATT
AT
Found at i:651855 original size:47 final size:47
Alignment explanation
Indices: 651804--651896 Score: 134
Period size: 47 Copynumber: 2.0 Consensus size: 47
651794 ATATATTATA
*
651804 TGTTTTCAAAACCGTTTT-AAAATCTATATACTATATGTTTTCAAAAT
1 TGTTTTCAAAACCGTTTTCAAAA-CTATATACTATACGTTTTCAAAAT
* * *
651851 TGTTTTCAAAACTGTTTTCAAAACTATATATTATACGTTTTTAAAA
1 TGTTTTCAAAACCGTTTTCAAAACTATATACTATACGTTTTCAAAA
651897 CTTATTTTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
47 37 0.90
48 4 0.10
ACGTcount: A:0.37, C:0.12, G:0.06, T:0.45
Consensus pattern (47 bp):
TGTTTTCAAAACCGTTTTCAAAACTATATACTATACGTTTTCAAAAT
Found at i:651856 original size:12 final size:12
Alignment explanation
Indices: 651839--651875 Score: 65
Period size: 12 Copynumber: 3.1 Consensus size: 12
651829 ATATACTATA
*
651839 TGTTTTCAAAAT
1 TGTTTTCAAAAC
651851 TGTTTTCAAAAC
1 TGTTTTCAAAAC
651863 TGTTTTCAAAAC
1 TGTTTTCAAAAC
651875 T
1 T
651876 ATATATTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.32, C:0.14, G:0.08, T:0.46
Consensus pattern (12 bp):
TGTTTTCAAAAC
Found at i:657857 original size:23 final size:24
Alignment explanation
Indices: 657821--657874 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 24
657811 GTTCATATCT
*
657821 AAAAAATTAGATG-ATTCTATTGAA
1 AAAAAATGAGATGAATTC-ATTGAA
*
657845 AAAAAATGA-ATGAATTCATTGAT
1 AAAAAATGAGATGAATTCATTGAA
657868 AAAAAAT
1 AAAAAAT
657875 TCATAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
23 15 0.56
24 12 0.44
ACGTcount: A:0.56, C:0.04, G:0.11, T:0.30
Consensus pattern (24 bp):
AAAAAATGAGATGAATTCATTGAA
Found at i:662550 original size:2 final size:2
Alignment explanation
Indices: 662543--662593 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
662533 ATCCTAACTC
662543 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
662585 AT AT AT AT A
1 AT AT AT AT A
662594 GTTCATTATC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:663244 original size:341 final size:340
Alignment explanation
Indices: 662591--663269 Score: 1313
Period size: 341 Copynumber: 2.0 Consensus size: 340
662581 ATATATATAT
*
662591 ATAGTTCATTATCTAATGGATTTTTCGTTTTAATACTCCATCCGAGAGTTATCAGTATTTATCAA
1 ATAGTTCATTATCTAATGGATTTTTCGTTCTAATACTCCATCCGAGAGTTATCAGTATTTATCAA
662656 ATCTGTTCCTATCTAACGGAAGGCTATTGGATCAAATGACAAAGACATTGTTGAGAAAAAGATGG
66 ATCTGTTCCTATCTAACGGAAGGCTATTGGATCAAATGACAAAGACATTGTTGAGAAAAAGATGG
* *
662721 CTTTTCCCGGATTAAATGGTTGTTGCTATCTGCTCCAATAACGAATCATTGGTTTAACTGAATAA
131 CTTTTCCCGGATGAAATGGTTGTTGCTATATGCTCCAATAACGAATCATTGGTTTAACTGAATAA
662786 CTAAATAAAATAGATAGACCTTTCTCTTCGTCTCAGGTCGATGGATCTTCTCAACTGGAGGATCC
196 CTAAATAAAATAGATAGACCTTTCTCTTCGTCTCAGGTCGATGGATCTTCTCAACTGGAGGATCC
662851 CCTATATGGATAATATATGGATAACACACATTCCAGTTGACCGAGCCTAATTCTAATTGTTCCGA
261 CCTATATGGATAATATATGGATAACACACATTCCAGTTGACCGAGCCTAATTCTAATTGTTCCGA
662916 AGCAAAGATATCCCA
326 AGCAAAGATATCCCA
662931 ATAGTTCATTATCTAATGGATTTTTCCGTTCTAATACTCCATCCGAGAGTTATCAGTATTTATCA
1 ATAGTTCATTATCTAATGGATTTTT-CGTTCTAATACTCCATCCGAGAGTTATCAGTATTTATCA
662996 AATCTGTTCCTATCTAACGGAAGGCTATTGGATCAAATGACAAAGACATTGTTGAGAAAAAGATG
65 AATCTGTTCCTATCTAACGGAAGGCTATTGGATCAAATGACAAAGACATTGTTGAGAAAAAGATG
663061 GCTTTTCCCGGATGAAATGGTTGTTGCTATATGCTCCAATAACGAATCATTGGTTTAACTGAATA
130 GCTTTTCCCGGATGAAATGGTTGTTGCTATATGCTCCAATAACGAATCATTGGTTTAACTGAATA
663126 ACTAAATAAAATAGATAGACCTTTCTCTTCGTCTCAGGTCGATGGATCTTCTCAACTGGAGGATC
195 ACTAAATAAAATAGATAGACCTTTCTCTTCGTCTCAGGTCGATGGATCTTCTCAACTGGAGGATC
663191 CCCTATATGGATAATATATGGATAACACACATTCCAGTTGACCGAGCCTAATTCTAATTGTTCCG
260 CCCTATATGGATAATATATGGATAACACACATTCCAGTTGACCGAGCCTAATTCTAATTGTTCCG
*
663256 AAGTAAAGATATCC
325 AAGCAAAGATATCC
663270 ACGGGGCGGT
Statistics
Matches: 334, Mismatches: 4, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
340 25 0.07
341 309 0.93
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.33
Consensus pattern (340 bp):
ATAGTTCATTATCTAATGGATTTTTCGTTCTAATACTCCATCCGAGAGTTATCAGTATTTATCAA
ATCTGTTCCTATCTAACGGAAGGCTATTGGATCAAATGACAAAGACATTGTTGAGAAAAAGATGG
CTTTTCCCGGATGAAATGGTTGTTGCTATATGCTCCAATAACGAATCATTGGTTTAACTGAATAA
CTAAATAAAATAGATAGACCTTTCTCTTCGTCTCAGGTCGATGGATCTTCTCAACTGGAGGATCC
CCTATATGGATAATATATGGATAACACACATTCCAGTTGACCGAGCCTAATTCTAATTGTTCCGA
AGCAAAGATATCCCA
Found at i:665399 original size:27 final size:23
Alignment explanation
Indices: 665334--665399 Score: 60
Period size: 24 Copynumber: 2.7 Consensus size: 23
665324 TTGAAATCCC
665334 TGATGGAATTTAATTCCATCAAA
1 TGATGGAATTTAATTCCATCAAA
* * *
665357 TGAGGGAAAGTGAATTCCATCAAAAAA
1 TGATGG-AATTTAATTCCATC---AAA
665384 TGGATGGAATTTAATT
1 T-GATGGAATTTAATT
665400 TCCTTGTTGG
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
23 5 0.16
24 12 0.38
27 11 0.34
28 4 0.12
ACGTcount: A:0.41, C:0.09, G:0.20, T:0.30
Consensus pattern (23 bp):
TGATGGAATTTAATTCCATCAAA
Found at i:665535 original size:5 final size:5
Alignment explanation
Indices: 665525--665550 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
665515 ATTCATATAT
665525 TCGGG TCGGG TCGGG TCGGG TCGGG T
1 TCGGG TCGGG TCGGG TCGGG TCGGG T
665551 GAAACTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.19, G:0.58, T:0.23
Consensus pattern (5 bp):
TCGGG
Found at i:665849 original size:37 final size:38
Alignment explanation
Indices: 665797--665880 Score: 125
Period size: 38 Copynumber: 2.2 Consensus size: 38
665787 TTTTGTTCAG
* *
665797 GTCGGGTTGG-GTTTTTTAAGTGTGATATTCGGGTCGA
1 GTCGGGTTGGATTTTTTTAAGTGTGATATTCGGATCGA
*
665834 GTCGGGTTGGATTTTTTTAAGTGTGATATTCGGATCGG
1 GTCGGGTTGGATTTTTTTAAGTGTGATATTCGGATCGA
665872 GTTCGGGTT
1 G-TCGGGTT
665881 TATGGTGAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
37 10 0.24
38 25 0.60
39 7 0.17
ACGTcount: A:0.13, C:0.08, G:0.37, T:0.42
Consensus pattern (38 bp):
GTCGGGTTGGATTTTTTTAAGTGTGATATTCGGATCGA
Found at i:671819 original size:223 final size:223
Alignment explanation
Indices: 671431--671876 Score: 892
Period size: 223 Copynumber: 2.0 Consensus size: 223
671421 GGTTGGATTT
671431 CATCCGTCGACGTTTGCACCAACTGCTGATATACTCATAGTAAACACTTTGCAACACTAGAACCA
1 CATCCGTCGACGTTTGCACCAACTGCTGATATACTCATAGTAAACACTTTGCAACACTAGAACCA
671496 CAGTACTTATTGTATAGAGCTGACAAACAAAACCACAGTACCTAATTAAAAGTTTGGAAGACAAA
66 CAGTACTTATTGTATAGAGCTGACAAACAAAACCACAGTACCTAATTAAAAGTTTGGAAGACAAA
671561 ACACTTGACCAAGTTTACTTATTACTAGATGTTGGTAGACAATATTGGGTTTGTTCAATATAGAA
131 ACACTTGACCAAGTTTACTTATTACTAGATGTTGGTAGACAATATTGGGTTTGTTCAATATAGAA
671626 AATGGGCTGACTACTACTTAACCAAAGA
196 AATGGGCTGACTACTACTTAACCAAAGA
671654 CATCCGTCGACGTTTGCACCAACTGCTGATATACTCATAGTAAACACTTTGCAACACTAGAACCA
1 CATCCGTCGACGTTTGCACCAACTGCTGATATACTCATAGTAAACACTTTGCAACACTAGAACCA
671719 CAGTACTTATTGTATAGAGCTGACAAACAAAACCACAGTACCTAATTAAAAGTTTGGAAGACAAA
66 CAGTACTTATTGTATAGAGCTGACAAACAAAACCACAGTACCTAATTAAAAGTTTGGAAGACAAA
671784 ACACTTGACCAAGTTTACTTATTACTAGATGTTGGTAGACAATATTGGGTTTGTTCAATATAGAA
131 ACACTTGACCAAGTTTACTTATTACTAGATGTTGGTAGACAATATTGGGTTTGTTCAATATAGAA
671849 AATGGGCTGACTACTACTTAACCAAAGA
196 AATGGGCTGACTACTACTTAACCAAAGA
671877 ACCCATGATG
Statistics
Matches: 223, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
223 223 1.00
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (223 bp):
CATCCGTCGACGTTTGCACCAACTGCTGATATACTCATAGTAAACACTTTGCAACACTAGAACCA
CAGTACTTATTGTATAGAGCTGACAAACAAAACCACAGTACCTAATTAAAAGTTTGGAAGACAAA
ACACTTGACCAAGTTTACTTATTACTAGATGTTGGTAGACAATATTGGGTTTGTTCAATATAGAA
AATGGGCTGACTACTACTTAACCAAAGA
Found at i:673140 original size:13 final size:13
Alignment explanation
Indices: 673122--673154 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
673112 TTTAACTATT
673122 GAATTCACTCAAC
1 GAATTCACTCAAC
673135 GAATTCACTCAAC
1 GAATTCACTCAAC
673148 GAATTCA
1 GAATTCA
673155 ATTTATGGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.39, C:0.27, G:0.09, T:0.24
Consensus pattern (13 bp):
GAATTCACTCAAC
Found at i:679321 original size:23 final size:23
Alignment explanation
Indices: 679295--679373 Score: 86
Period size: 23 Copynumber: 3.4 Consensus size: 23
679285 GTTTGTGTTC
*
679295 ATTCGTTTAATATTCGTGAACAT
1 ATTCGTTTAATGTTCGTGAACAT
* * *
679318 ATTCGTTTAACGTTAGAGAACAT
1 ATTCGTTTAATGTTCGTGAACAT
* * * *
679341 GTTTGTTTAGTGTTCATGAACAT
1 ATTCGTTTAATGTTCGTGAACAT
679364 ATTCGTTTAA
1 ATTCGTTTAA
679374 CGATAGTTTA
Statistics
Matches: 42, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.29, C:0.11, G:0.16, T:0.43
Consensus pattern (23 bp):
ATTCGTTTAATGTTCGTGAACAT
Found at i:682525 original size:65 final size:66
Alignment explanation
Indices: 682372--682537 Score: 185
Period size: 65 Copynumber: 2.5 Consensus size: 66
682362 TGTACTAAGA
* * *
682372 GTGCATCGATGCATCAAGTGCATTCGATGATTTAAAATAGCCAGAGTGCATCGATGCATGGTTGG
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTAAAATAGCCACAGTGCATCGATGCA--G-TGG
682437 TGCAT
63 T-CAT
* * * * *
682442 ATGCATCGATACATCAAATGCATTCGATGTTTTCATAAA-ATCCTCAGTGCATCGGTGCA-TGGT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTT-A-AAATAGCCACAGTGCATCGATGCAGTGGT
682505 -AT
64 CAT
682507 GTGCATCGATGCATCAAATGCATTCGATGTT
1 GTGCATCGATGCATCAAATGCATTCGATGTT
682538 CAATTTAATT
Statistics
Matches: 84, Mismatches: 10, Indels: 9
0.82 0.10 0.09
Matches are distributed among these distances:
65 31 0.37
67 4 0.05
70 29 0.35
71 17 0.20
72 3 0.04
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.31
Consensus pattern (66 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTTAAAATAGCCACAGTGCATCGATGCAGTGGTCA
T
Found at i:683088 original size:2 final size:2
Alignment explanation
Indices: 683081--683110 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
683071 TATTTTGATA
683081 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
683111 TTATTTTAGT
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:688776 original size:20 final size:19
Alignment explanation
Indices: 688742--688783 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
688732 ATCGAAGCTT
*
688742 TTTAGGGTTTCTTAGGTTG
1 TTTAGGGTTTCTTAGGTAG
*
688761 TTTAGGAGTTTTTTAGGTAG
1 TTTAGG-GTTTCTTAGGTAG
688781 TTT
1 TTT
688784 TACGCTTAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.14, C:0.02, G:0.29, T:0.55
Consensus pattern (19 bp):
TTTAGGGTTTCTTAGGTAG
Found at i:691588 original size:23 final size:22
Alignment explanation
Indices: 691539--691589 Score: 57
Period size: 23 Copynumber: 2.3 Consensus size: 22
691529 TTTTATAAAT
*
691539 ATTATATTTTAATTAAATTACA
1 ATTATATTTTAACTAAATTACA
* * *
691561 TTTATATTTTTAACTAATTTATA
1 ATTATA-TTTTAACTAAATTACA
691584 ATTATA
1 ATTATA
691590 CGTTTAGTAT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
22 5 0.22
23 18 0.78
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (22 bp):
ATTATATTTTAACTAAATTACA
Found at i:693415 original size:24 final size:25
Alignment explanation
Indices: 693374--693421 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
693364 TTTTTTACCT
*
693374 AAGTATCTTAAGTATATTTTTTTAA
1 AAGTATCTGAAGTATATTTTTTTAA
*
693399 AAGTATGTGAAGT-TATTTTTTTA
1 AAGTATCTGAAGTATATTTTTTTA
693422 TTAAAACATG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.33, C:0.02, G:0.12, T:0.52
Consensus pattern (25 bp):
AAGTATCTGAAGTATATTTTTTTAA
Found at i:693590 original size:29 final size:29
Alignment explanation
Indices: 693557--693641 Score: 76
Period size: 29 Copynumber: 3.1 Consensus size: 29
693547 GAATAAGCTT
693557 AAATACTTTAAGTATATACTTTGAC-AAA
1 AAATACTTTAAGTATATACTTTGACAAAA
* * *
693585 AAA-A---TAGGTACATATTTTGACAAAA
1 AAATACTTTAAGTATATACTTTGACAAAA
693610 AAATAACTTT-A-TATATTACTTTGACAAAA
1 AAAT-ACTTTAAGTATA-TACTTTGACAAAA
693639 AAA
1 AAA
693642 ATATTGTAAG
Statistics
Matches: 44, Mismatches: 6, Indels: 13
0.70 0.10 0.21
Matches are distributed among these distances:
24 14 0.32
25 6 0.14
27 2 0.05
28 6 0.14
29 15 0.34
30 1 0.02
ACGTcount: A:0.51, C:0.09, G:0.07, T:0.33
Consensus pattern (29 bp):
AAATACTTTAAGTATATACTTTGACAAAA
Found at i:693623 original size:24 final size:24
Alignment explanation
Indices: 693569--693641 Score: 65
Period size: 24 Copynumber: 2.8 Consensus size: 24
693559 ATACTTTAAG
* **
693569 TATATACTTTGACAAAAAAATAGG
1 TATATATTTTGACAAAAAAATAAC
*
693593 TACATATTTTGACAAAAAAATAAC
1 TATATATTTTGACAAAAAAATAAC
693617 TTTATATATTACTTTGACAAAAAAA
1 --TATATA-T--TTTGACAAAAAAA
693642 ATATTGTAAG
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
24 20 0.51
26 5 0.13
27 1 0.03
29 13 0.33
ACGTcount: A:0.51, C:0.10, G:0.07, T:0.33
Consensus pattern (24 bp):
TATATATTTTGACAAAAAAATAAC
Found at i:711525 original size:84 final size:83
Alignment explanation
Indices: 711351--711525 Score: 246
Period size: 83 Copynumber: 2.1 Consensus size: 83
711341 ATTTGACTCT
* * *
711351 AGGTCTTTGGTTAACAATAGCCCTTCTCGACTTAAGTTATGTTGCAAATGATATGCCTTTGAGCT
1 AGGTCTTTGGTTAACAATAACCCTTCTAGACTTAAGTTATGTTGCAAATGATATGCCTTCGAGCT
711416 GAGTGTAATCGAACTCGA
66 GAGTGTAATCGAACTCGA
* * *
711434 AGGTCTTT-GTTGACAGATAACCCTTCTAGCCTTGAGTTATGTTGCAAATGATATG-CTCTCGAA
1 AGGTCTTTGGTTAACA-ATAACCCTTCTAGACTTAAGTTATGTTGCAAATGATATGCCT-TCG-A
*
711497 GCTGAGTGTAGTCGAACTCGA
63 GCTGAGTGTAATCGAACTCGA
711518 AGGTCTTT
1 AGGTCTTT
711526 CTGTTTCAAG
Statistics
Matches: 82, Mismatches: 7, Indels: 5
0.87 0.07 0.05
Matches are distributed among these distances:
82 8 0.10
83 45 0.55
84 29 0.35
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (83 bp):
AGGTCTTTGGTTAACAATAACCCTTCTAGACTTAAGTTATGTTGCAAATGATATGCCTTCGAGCT
GAGTGTAATCGAACTCGA
Found at i:711621 original size:36 final size:36
Alignment explanation
Indices: 711560--711825 Score: 243
Period size: 36 Copynumber: 7.7 Consensus size: 36
711550 AGGTTTTTTT
* *
711560 TTTGTTTCAAGAGAAATTGTCTCAAGAGAGACAAAC
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAC
*
711596 TTTGTTTCAAGGGAAACTGTATCAAGAGAGACAAA-
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAC
* *
711631 ATTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAC
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGAC-AAAC
* * ** * *
711668 TTAGTTCCAAAAGAAAATGTCTCAAGGGAGACGAAA-
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGAC-AAAC
* ** * *
711704 TTTGTTT-AAGGAAAACCAT-T-TA-A-AG---ATC
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAC
*
711732 -TTGTTTCAAGGG--ACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAC
* *
711765 TTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAC
*
711801 TTTATTTCAAGGGAAACTGTCTCAA
1 TTTGTTTCAAGGGAAACTGTCTCAA
711826 AGAAAGAAAG
Statistics
Matches: 183, Mismatches: 33, Indels: 28
0.75 0.14 0.11
Matches are distributed among these distances:
26 3 0.02
27 8 0.04
28 5 0.03
29 1 0.01
30 2 0.01
31 2 0.01
33 2 0.01
34 13 0.07
35 35 0.19
36 83 0.45
37 29 0.16
ACGTcount: A:0.40, C:0.14, G:0.20, T:0.26
Consensus pattern (36 bp):
TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAC
Found at i:712456 original size:32 final size:32
Alignment explanation
Indices: 712388--712460 Score: 85
Period size: 32 Copynumber: 2.3 Consensus size: 32
712378 TAGCATCAGG
* * * *
712388 ATGTTGAATCCCCAAAGATGACCTAATATTTG
1 ATGTTGAATCCCCAAAAATGACCCAACATTTA
*
712420 ATGTTGAATCTCCAAAAAT-ACCCCAACATTTA
1 ATGTTGAATCCCCAAAAATGA-CCCAACATTTA
712452 ATGTTGAAT
1 ATGTTGAAT
712461 ATTCAAAGAT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
31 1 0.03
32 34 0.97
ACGTcount: A:0.37, C:0.19, G:0.12, T:0.32
Consensus pattern (32 bp):
ATGTTGAATCCCCAAAAATGACCCAACATTTA
Found at i:712869 original size:20 final size:20
Alignment explanation
Indices: 712844--712884 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
712834 AAAAAGTCTC
712844 AGGTTATTGTGTTTGGTCAA
1 AGGTTATTGTGTTTGGTCAA
712864 AGGTTATTGTGTTTGGTCAA
1 AGGTTATTGTGTTTGGTCAA
712884 A
1 A
712885 TGTTTGCCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.22, C:0.05, G:0.29, T:0.44
Consensus pattern (20 bp):
AGGTTATTGTGTTTGGTCAA
Found at i:713590 original size:28 final size:28
Alignment explanation
Indices: 713559--713620 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
713549 TTTGCCTTTA
* *
713559 TTTTTGTTTTTTTTAATTTTCTCTTTGTT
1 TTTTTCTTTGTTTT-ATTTTCTCTTTGTT
* *
713588 TTTTTCTTTGTTTTTTTTTCTCTTTTTT
1 TTTTTCTTTGTTTTATTTTCTCTTTGTT
713616 TTTTT
1 TTTTT
713621 TGTTCTGATT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 17 0.59
29 12 0.41
ACGTcount: A:0.03, C:0.08, G:0.05, T:0.84
Consensus pattern (28 bp):
TTTTTCTTTGTTTTATTTTCTCTTTGTT
Found at i:713595 original size:12 final size:12
Alignment explanation
Indices: 713575--713604 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
713565 TTTTTTTTAA
*
713575 TTTTCTCTTTGT
1 TTTTTTCTTTGT
713587 TTTTTTCTTTGT
1 TTTTTTCTTTGT
713599 TTTTTT
1 TTTTTT
713605 TTCTCTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.00, C:0.10, G:0.07, T:0.83
Consensus pattern (12 bp):
TTTTTTCTTTGT
Found at i:713620 original size:14 final size:14
Alignment explanation
Indices: 713575--713620 Score: 67
Period size: 14 Copynumber: 3.3 Consensus size: 14
713565 TTTTTTTTAA
*
713575 TTTTCTCTTTGTTT
1 TTTTCTCTTTTTTT
713589 TTTTCT-TTGTTTTT
1 TTTTCTCTT-TTTTT
713603 TTTTCTCTTTTTTT
1 TTTTCTCTTTTTTT
713617 TTTT
1 TTTT
713621 TGTTCTGATT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
13 2 0.07
14 25 0.86
15 2 0.07
ACGTcount: A:0.00, C:0.11, G:0.04, T:0.85
Consensus pattern (14 bp):
TTTTCTCTTTTTTT
Found at i:716580 original size:3 final size:3
Alignment explanation
Indices: 716574--716605 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
716564 AAAAAAATAG
*
716574 AAT AAT AAT AAT AAT AAT ACT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
716606 AAACAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:716682 original size:8 final size:8
Alignment explanation
Indices: 716669--716693 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
716659 GATAAATAAA
716669 ATATATGT
1 ATATATGT
716677 ATATATGT
1 ATATATGT
716685 ATATATGT
1 ATATATGT
716693 A
1 A
716694 ATAATAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (8 bp):
ATATATGT
Found at i:716817 original size:18 final size:19
Alignment explanation
Indices: 716780--716818 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
716770 ATAGAGAGAG
* *
716780 AAAAATAATAATAAATTAA
1 AAAAATAATAACAAAATAA
716799 AAAAATAA-AACAAAATAA
1 AAAAATAATAACAAAATAA
716817 AA
1 AA
716819 CATATAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (19 bp):
AAAAATAATAACAAAATAA
Found at i:719592 original size:44 final size:45
Alignment explanation
Indices: 719474--719592 Score: 107
Period size: 46 Copynumber: 2.6 Consensus size: 45
719464 TTGAAGGCGG
* * *
719474 GCTCGCTTGAGAGAGCTCCAACCCTTTGTGAATTTTTTGAGGATAA
1 GCTCGCTTG-GAGCGCTCAAACCCTTTGTGAATTTTTAGAGGATAA
* * * * *
719520 GCTTGCCTCGGAGCACTCAAACCTTTTGTGGATTTTTAG-GGA-AA
1 GCTCG-CTTGGAGCGCTCAAACCCTTTGTGAATTTTTAGAGGATAA
* *
719564 GCTCGCTTTGGAGCGCTCGAACCGTTTGT
1 GCTCGC-TTGGAGCGCTCAAACCCTTTGT
719593 AGACTTTGAG
Statistics
Matches: 58, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
43 1 0.02
44 24 0.41
45 3 0.05
46 27 0.47
47 3 0.05
ACGTcount: A:0.20, C:0.22, G:0.26, T:0.32
Consensus pattern (45 bp):
GCTCGCTTGGAGCGCTCAAACCCTTTGTGAATTTTTAGAGGATAA
Found at i:720281 original size:9 final size:9
Alignment explanation
Indices: 720244--720286 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
720234 AATAATTAAA
720244 TTTAATTAT
1 TTTAATTAT
*
720253 TTTATTTAGT
1 TTTAATTA-T
* *
720263 TTTTAGTAT
1 TTTAATTAT
720272 TTTAATTAT
1 TTTAATTAT
720281 TTTAAT
1 TTTAAT
720287 CGGTGAAATT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
9 21 0.78
10 6 0.22
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (9 bp):
TTTAATTAT
Found at i:720386 original size:15 final size:15
Alignment explanation
Indices: 720362--720433 Score: 90
Period size: 15 Copynumber: 4.8 Consensus size: 15
720352 ATCTTATGTA
720362 ATTTAAATAATTCAT
1 ATTTAAATAATTCAT
* **
720377 ATTTACATAATTTGT
1 ATTTAAATAATTCAT
**
720392 ATTTAAATAATTGGT
1 ATTTAAATAATTCAT
*
720407 GTTTAAATAATTCAT
1 ATTTAAATAATTCAT
720422 ATTTAAATAATT
1 ATTTAAATAATT
720434 GATAAAAATA
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 48 1.00
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.49
Consensus pattern (15 bp):
ATTTAAATAATTCAT
Found at i:727561 original size:198 final size:203
Alignment explanation
Indices: 727313--727714 Score: 726
Period size: 198 Copynumber: 2.0 Consensus size: 203
727303 AAATTCTAAA
727313 TATGGTTTAAACATTAATCTGGTCTTTGATTTTTATAATATATGAATTGTATTAATTGAA-TATT
1 TATGGTTTAAACATTAATCTGGTCTTTGATTTTTATAATATATGAATTGTATTAATTGAATTATT
727377 TCATTAATTTAACAAT-TATTTAAGTATTAGATATCGA-TTAAATCTAATGTGTTACATAACTTA
66 TCATTAATTTAACAATATA-TTAAGTATTAGATATCGATTTAAATCTAATGTGTTACATAACTTA
727440 AAGATACTGATC-TGTATACTTATCGTATTG-TAACTT-TATTTAATGTGCTAAAAAATCAAAGA
130 AAGATACTGATCATGTATACTTATCGTATTGATAACTTATATTTAATGTGCTAAAAAATCAAAGA
727502 TTACTCAAT
195 TTACTCAAT
*
727511 TATGGTTTAAACATTAATCTGGTCTTTGATTTTTATAATATATTAATTGTATTAATTGAATTATT
1 TATGGTTTAAACATTAATCTGGTCTTTGATTTTTATAATATATGAATTGTATTAATTGAATTATT
727576 TCATTAATTTAACAATATATTAAGTATTAGATATCGATTTAAATCTAATGTGTTACATAACTTAA
66 TCATTAATTTAACAATATATTAAGTATTAGATATCGATTTAAATCTAATGTGTTACATAACTTAA
727641 AGATACTGATCAATTGTATACTTATCGTATTGATAACTTATATTTAATGTGCTAAAAAATCAAAG
131 AGATACTGATC-A-TGTATACTTATCGTATTGATAACTTATATTTAATGTGCTAAAAAATCAAAG
727706 ATTACTCAA
194 ATTACTCAA
727715 ATTTCAAAGG
Statistics
Matches: 195, Mismatches: 1, Indels: 9
0.95 0.00 0.04
Matches are distributed among these distances:
198 59 0.30
199 38 0.19
200 40 0.21
203 18 0.09
204 6 0.03
205 34 0.17
ACGTcount: A:0.38, C:0.09, G:0.10, T:0.43
Consensus pattern (203 bp):
TATGGTTTAAACATTAATCTGGTCTTTGATTTTTATAATATATGAATTGTATTAATTGAATTATT
TCATTAATTTAACAATATATTAAGTATTAGATATCGATTTAAATCTAATGTGTTACATAACTTAA
AGATACTGATCATGTATACTTATCGTATTGATAACTTATATTTAATGTGCTAAAAAATCAAAGAT
TACTCAAT
Found at i:733404 original size:68 final size:72
Alignment explanation
Indices: 733325--733469 Score: 255
Period size: 70 Copynumber: 2.1 Consensus size: 72
733315 CTAATTCTAT
733325 GTCTTTTATGATTTATAA-TGGGT-ATAAATACAGCGATTGGAGGTCCCCCC-ATAATCACTGC-
1 GTCTTTTATGATTTATAACTGGGTAATAAATACAGCGATTGGAGGTCCCCCCAATAATCACTGCT
733386 TTTTGGA
66 TTTTGGA
733393 GTCTTTTATGATTTATAACTGGGTAATAAATACAGCGATTGGAGGTCCCCCCAATAATCACTGCT
1 GTCTTTTATGATTTATAACTGGGTAATAAATACAGCGATTGGAGGTCCCCCCAATAATCACTGCT
733458 TTTTGGA
66 TTTTGGA
733465 G-CTTT
1 GTCTTT
733470 CTGTAAGAAG
Statistics
Matches: 73, Mismatches: 0, Indels: 5
0.94 0.00 0.06
Matches are distributed among these distances:
68 18 0.25
69 5 0.07
70 27 0.37
71 15 0.21
72 8 0.11
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (72 bp):
GTCTTTTATGATTTATAACTGGGTAATAAATACAGCGATTGGAGGTCCCCCCAATAATCACTGCT
TTTTGGA
Found at i:734282 original size:14 final size:14
Alignment explanation
Indices: 734263--734292 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
734253 TGACACATGT
734263 CATCGTGGCAGCAG
1 CATCGTGGCAGCAG
*
734277 CATCGTTGCAGCAG
1 CATCGTGGCAGCAG
734291 CA
1 CA
734293 GATTATGGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.23, C:0.30, G:0.30, T:0.17
Consensus pattern (14 bp):
CATCGTGGCAGCAG
Found at i:736262 original size:13 final size:13
Alignment explanation
Indices: 736244--736273 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
736234 GAGATAATGC
736244 AGTGCTCAGATTA
1 AGTGCTCAGATTA
736257 AGTGCTCAGATTA
1 AGTGCTCAGATTA
736270 AGTG
1 AGTG
736274 TTCAAATGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.30, C:0.13, G:0.27, T:0.30
Consensus pattern (13 bp):
AGTGCTCAGATTA
Found at i:737016 original size:21 final size:21
Alignment explanation
Indices: 736991--737034 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
736981 AATCTAGTTA
736991 ATTAGTTTGTTAGTATAAATT
1 ATTAGTTTGTTAGTATAAATT
* *
737012 ATTAGTTTTTTAGTTTAAATT
1 ATTAGTTTGTTAGTATAAATT
737033 AT
1 AT
737035 ATTATATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (21 bp):
ATTAGTTTGTTAGTATAAATT
Found at i:737056 original size:22 final size:22
Alignment explanation
Indices: 737025--737066 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
737015 AGTTTTTTAG
737025 TTTAAATTATAT-TATATATTTT
1 TTTAAATTATATAT-TATATTTT
*
737047 TTTAAGTTATATATTATATT
1 TTTAAATTATATATTATATT
737067 ATATAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (22 bp):
TTTAAATTATATATTATATTTT
Found at i:737069 original size:27 final size:27
Alignment explanation
Indices: 737009--737071 Score: 83
Period size: 29 Copynumber: 2.3 Consensus size: 27
736999 GTTAGTATAA
*
737009 ATTAT-TAGTTTTTTAGTTTAAATTAT
1 ATTATATATTTTTTTAGTTTAAATTAT
*
737035 ATTATATATTTTTTTAAGTTATATATTAT
1 ATTATATATTTTTTT-AGTT-TAAATTAT
737064 ATTATATA
1 ATTATATA
737072 AAAAATTAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
26 5 0.16
27 8 0.25
28 4 0.12
29 15 0.47
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (27 bp):
ATTATATATTTTTTTAGTTTAAATTAT
Found at i:737562 original size:17 final size:17
Alignment explanation
Indices: 737540--737600 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
737530 AATAATTTCC
737540 GTTTAAAAAAATATTGT
1 GTTTAAAAAAATATTGT
* *
737557 GTTTAAAAATATTTAGTGTT
1 GTTTAAAAA-A-ATATTG-T
*
737577 GTTTAAAAAAAATATTTT
1 GTTT-AAAAAAATATTGT
737595 GTTTAA
1 GTTTAA
737601 TTTATATTGT
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
17 11 0.31
18 6 0.17
19 7 0.20
20 6 0.17
21 5 0.14
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (17 bp):
GTTTAAAAAAATATTGT
Found at i:738206 original size:29 final size:29
Alignment explanation
Indices: 738164--738242 Score: 149
Period size: 29 Copynumber: 2.7 Consensus size: 29
738154 ACGAACCAGC
*
738164 ATAGGTCGCCATGCACTCCCGACGTCCTT
1 ATAGGTCGCCATGCACGCCCGACGTCCTT
738193 ATAGGTCGCCATGCACGCCCGACGTCCTT
1 ATAGGTCGCCATGCACGCCCGACGTCCTT
738222 ATAGGTCGCCATGCACGCCCG
1 ATAGGTCGCCATGCACGCCCG
738243 GCATCCAACG
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 49 1.00
ACGTcount: A:0.18, C:0.38, G:0.24, T:0.20
Consensus pattern (29 bp):
ATAGGTCGCCATGCACGCCCGACGTCCTT
Found at i:738420 original size:12 final size:11
Alignment explanation
Indices: 738400--738480 Score: 83
Period size: 11 Copynumber: 7.1 Consensus size: 11
738390 GAATTCAGCT
738400 GCATTATTGCA
1 GCATTATTGCA
738411 GCACTTATTG-A
1 GCA-TTATTGCA
738422 TGCATTATTGCA
1 -GCATTATTGCA
* *
738434 GCCCTTATTGCT
1 G-CATTATTGCA
738446 GCATTATTGCA
1 GCATTATTGCA
* *
738457 GCCCTTATTGCT
1 G-CATTATTGCA
738469 GCATTATTGCA
1 GCATTATTGCA
738480 G
1 G
738481 TCCTTCAGCT
Statistics
Matches: 57, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
11 29 0.51
12 28 0.49
ACGTcount: A:0.21, C:0.22, G:0.19, T:0.38
Consensus pattern (11 bp):
GCATTATTGCA
Found at i:738427 original size:23 final size:23
Alignment explanation
Indices: 738397--738485 Score: 151
Period size: 23 Copynumber: 3.9 Consensus size: 23
738387 CGTGAATTCA
*
738397 GCTGCATTATTGCAGCACTTATT
1 GCTGCATTATTGCAGCCCTTATT
*
738420 GATGCATTATTGCAGCCCTTATT
1 GCTGCATTATTGCAGCCCTTATT
738443 GCTGCATTATTGCAGCCCTTATT
1 GCTGCATTATTGCAGCCCTTATT
*
738466 GCTGCATTATTGCAGTCCTT
1 GCTGCATTATTGCAGCCCTT
738486 CAGCTCACGT
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 62 1.00
ACGTcount: A:0.19, C:0.24, G:0.18, T:0.39
Consensus pattern (23 bp):
GCTGCATTATTGCAGCCCTTATT
Found at i:738927 original size:27 final size:29
Alignment explanation
Indices: 738863--738927 Score: 73
Period size: 27 Copynumber: 2.3 Consensus size: 29
738853 TATATTAAAA
738863 AAATAATTAATTAGTGTGTTAGTTAGTCT
1 AAATAATTAATTAGTGTGTTAGTTAGTCT
** *
738892 -AATTTTTAATTAGTTTG-TAGTTAGT-T
1 AAATAATTAATTAGTGTGTTAGTTAGTCT
*
738918 AAATAGTTAA
1 AAATAATTAA
738928 GTTATATTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
26 1 0.03
27 15 0.50
28 14 0.47
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (29 bp):
AAATAATTAATTAGTGTGTTAGTTAGTCT
Found at i:738994 original size:27 final size:27
Alignment explanation
Indices: 738964--739053 Score: 69
Period size: 27 Copynumber: 3.3 Consensus size: 27
738954 TTATATAAAA
738964 AAAATAGTTAATTAGTTTAAGTTATAT
1 AAAATAGTTAATTAGTTTAAGTTATAT
* * **
738991 AAAATAATTATTTA-AATAAGTTATTGTAT
1 AAAATAGTTAATTAGTTTAAGTTA---TAT
*
739020 AATTATTAGTTAATTAGTTT-A-TTATAT
1 AA--AATAGTTAATTAGTTTAAGTTATAT
739047 AAAATAG
1 AAAATAG
739054 GGTAACACAA
Statistics
Matches: 47, Mismatches: 10, Indels: 14
0.66 0.14 0.20
Matches are distributed among these distances:
25 4 0.09
26 7 0.15
27 17 0.36
29 5 0.11
30 3 0.06
31 10 0.21
32 1 0.02
ACGTcount: A:0.46, C:0.00, G:0.09, T:0.46
Consensus pattern (27 bp):
AAAATAGTTAATTAGTTTAAGTTATAT
Found at i:739350 original size:22 final size:22
Alignment explanation
Indices: 739325--739401 Score: 75
Period size: 22 Copynumber: 3.3 Consensus size: 22
739315 AATCATTTAT
739325 TAGTTTAAGTTATATTAAAAAA
1 TAGTTTAAGTTATATTAAAAAA
* *
739347 TAGTTTATAGTTAAAGTTTAGTAAAA
1 TAGTTTA-AGTTATA--TTA-AAAAA
*
739373 TAGTTAAAGTTATTATT-AAAAA
1 TAGTTTAAGTTA-TATTAAAAAA
739395 TAGTTTA
1 TAGTTTA
739402 TTAGTTGTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
22 17 0.39
23 6 0.14
24 2 0.05
25 8 0.18
26 11 0.25
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.43
Consensus pattern (22 bp):
TAGTTTAAGTTATATTAAAAAA
Found at i:739357 original size:29 final size:30
Alignment explanation
Indices: 739300--739372 Score: 75
Period size: 29 Copynumber: 2.5 Consensus size: 30
739290 TTTTTAGTAA
739300 TAAA-TTATAATT-AAAAATCATTTATTAGT
1 TAAAGTTAT-ATTAAAAAATCATTTATTAGT
*
739329 TTAAGTTATATTAAAAAAT-AGTTTA-TAGT
1 TAAAGTTATATTAAAAAATCA-TTTATTAGT
*
739358 TAAAGTT-TAGTAAAA
1 TAAAGTTATATTAAAA
739373 TAGTTAAAGT
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
28 7 0.18
29 17 0.45
30 14 0.37
ACGTcount: A:0.48, C:0.01, G:0.08, T:0.42
Consensus pattern (30 bp):
TAAAGTTATATTAAAAAATCATTTATTAGT
Found at i:739896 original size:27 final size:27
Alignment explanation
Indices: 739860--739959 Score: 67
Period size: 27 Copynumber: 3.6 Consensus size: 27
739850 TTTATCATCC
*
739860 TATTAGTAATCATTATTATAATTTCAT
1 TATTATTAATCATTATTATAATTTCAT
* * * *
739887 TATTATTAATAATTACTATCATTACAAT
1 TATTATTAATCATTATTATAATTTC-AT
* * *
739915 CAAATAATTAAAT-ATTAATAATAATTTCAT
1 --TATTATT-AATCATT-ATTATAATTTCAT
*
739945 TATTACTAATCATTA
1 TATTATTAATCATTA
739960 CTATTAAATC
Statistics
Matches: 53, Mismatches: 14, Indels: 12
0.67 0.18 0.15
Matches are distributed among these distances:
27 24 0.45
28 9 0.17
30 10 0.19
31 10 0.19
ACGTcount: A:0.44, C:0.09, G:0.01, T:0.46
Consensus pattern (27 bp):
TATTATTAATCATTATTATAATTTCAT
Found at i:739959 original size:49 final size:49
Alignment explanation
Indices: 739898--740182 Score: 486
Period size: 49 Copynumber: 5.9 Consensus size: 49
739888 ATTATTAATA
* *
739898 ATTACT-ATCATTACAATCAAATAATTAAATATTAATAATAATTTCATT
1 ATTACTAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATT
*
739946 ATTACTAATCATTACTATTAAATCATTAAATATTAATAATAATTTCATT
1 ATTACTAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATT
*
739995 ATTACTAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATC
1 ATTACTAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATT
* *
740044 ATTACTAATCATTACCATCAATTCATTAAATATTAATAATAATTTCATT
1 ATTACTAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATT
*
740093 CTTACTAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATT
1 ATTACTAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATT
740142 ATTACTAATCATTACTATC-AATCATTAAATA-TAATAATAAT
1 ATTACTAATCATTACTATCAAATCATTAAATATTAATAATAAT
740183 GGTGCCTCAG
Statistics
Matches: 224, Mismatches: 12, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
47 10 0.04
48 18 0.08
49 196 0.88
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.42
Consensus pattern (49 bp):
ATTACTAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATT
Found at i:740396 original size:62 final size:62
Alignment explanation
Indices: 740295--740418 Score: 239
Period size: 62 Copynumber: 2.0 Consensus size: 62
740285 AATACATATA
740295 TGATTACTAATGATGAGGCCTATATCTTGGTAAACTAGGACAATTGTTTTTTGAATGGCCTT
1 TGATTACTAATGATGAGGCCTATATCTTGGTAAACTAGGACAATTGTTTTTTGAATGGCCTT
*
740357 TGATTACTAATGATGAGGCCTATATCTTGGTAAATTAGGACAATTGTTTTTTGAATGGCCTT
1 TGATTACTAATGATGAGGCCTATATCTTGGTAAACTAGGACAATTGTTTTTTGAATGGCCTT
740419 CACCCCTACA
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.27, C:0.12, G:0.21, T:0.40
Consensus pattern (62 bp):
TGATTACTAATGATGAGGCCTATATCTTGGTAAACTAGGACAATTGTTTTTTGAATGGCCTT
Found at i:743349 original size:28 final size:30
Alignment explanation
Indices: 743309--743371 Score: 112
Period size: 28 Copynumber: 2.2 Consensus size: 30
743299 ATTTTTTATA
743309 TAATATAATATATAACTTAAACTAACAAAC
1 TAATATAATATATAACTTAAACTAACAAAC
743339 TAATAT-A-ATATAACTTAAACTAACAAAC
1 TAATATAATATATAACTTAAACTAACAAAC
743367 TAATA
1 TAATA
743372 ATTTATACTA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 26 0.79
29 1 0.03
30 6 0.18
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.30
Consensus pattern (30 bp):
TAATATAATATATAACTTAAACTAACAAAC
Found at i:743378 original size:28 final size:28
Alignment explanation
Indices: 743313--743378 Score: 107
Period size: 28 Copynumber: 2.4 Consensus size: 28
743303 TTTATATAAT
743313 ATAATATATAACTTAAACTAACAAACTA
1 ATAATATATAACTTAAACTAACAAACTA
743341 AT-ATAATATAACTTAAACTAACAAACTA
1 ATAAT-ATATAACTTAAACTAACAAACTA
*
743369 ATAATTTATA
1 ATAATATATA
743379 CTAACAAACT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
27 2 0.06
28 31 0.89
29 2 0.06
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (28 bp):
ATAATATATAACTTAAACTAACAAACTA
Found at i:743381 original size:21 final size:21
Alignment explanation
Indices: 743348--743396 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
743338 CTAATATAAT
743348 ATAACTTAAACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
* *
743369 ATAATTTATACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
743390 ATTAACT
1 A-TAACT
743397 AGATTTTAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (21 bp):
ATAACTTAAACTAACAAACTA
Found at i:743922 original size:37 final size:37
Alignment explanation
Indices: 743872--743945 Score: 121
Period size: 37 Copynumber: 2.0 Consensus size: 37
743862 CCGGGACTCA
743872 ATGGCAACCTACCATGTCGCCAGACGTGACCTACACC
1 ATGGCAACCTACCATGTCGCCAGACGTGACCTACACC
* * *
743909 ATGGCGACCTACCATGTCGCCGGACTTGACCTACACC
1 ATGGCAACCTACCATGTCGCCAGACGTGACCTACACC
743946 CCACGTGCAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.24, C:0.38, G:0.20, T:0.18
Consensus pattern (37 bp):
ATGGCAACCTACCATGTCGCCAGACGTGACCTACACC
Found at i:746927 original size:45 final size:45
Alignment explanation
Indices: 746878--747230 Score: 474
Period size: 45 Copynumber: 7.8 Consensus size: 45
746868 AAAGGATGCC
*
746878 ATAGTTGAAATGTATATGAGTACATTATCAACAGAAAAGTATACT
1 ATAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACT
* *
746923 ATAGTTGAAATGCATATGGGTACATTATTAACAGAAAAGTATACT
1 ATAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACT
* * * *
746968 AAAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATGCT
1 ATAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACT
* * * *
747013 ATAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAATATGCT
1 ATAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACT
* * *
747058 AAAGTTGAAATGTATATGGGTGCATTATCAACAGAAAAGTATGCT
1 ATAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACT
* *
747103 ATAGTTGAAATGTATATGGGTACATTTTCAACAGAAAAGTATACG
1 ATAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACT
* * * *
747148 ATAGTTGAAATGTATAGGGGTACATTTTCAACAGAAAATTACACT
1 ATAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACT
* * * *
747193 ATAATTAAAAT-TCTTATGGGTGCATTATCAACAGAAAA
1 ATAGTTGAAATGT-ATATGGGTACATTATCAACAGAAAA
747231 CAATGTTATA
Statistics
Matches: 280, Mismatches: 27, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
44 1 0.00
45 279 1.00
ACGTcount: A:0.41, C:0.10, G:0.19, T:0.30
Consensus pattern (45 bp):
ATAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACT
Found at i:752341 original size:13 final size:15
Alignment explanation
Indices: 752325--752357 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
752315 TTTATAGATG
752325 TTTTAT-TT-ATATT
1 TTTTATCTTGATATT
752338 TTTTATCTTGATATT
1 TTTTATCTTGATATT
752353 TTTTA
1 TTTTA
752358 GAAATGTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.33
14 2 0.11
15 10 0.56
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.73
Consensus pattern (15 bp):
TTTTATCTTGATATT
Found at i:759737 original size:3 final size:3
Alignment explanation
Indices: 759729--759767 Score: 60
Period size: 3 Copynumber: 12.3 Consensus size: 3
759719 AATATTTTAT
759729 TTA TTA TTA TTA TTA TTA TTA TTAA TTAA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TT-A TT-A TTA TTA TTA T
759768 ATTTGTGCAA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 28 0.80
4 7 0.20
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:765299 original size:43 final size:42
Alignment explanation
Indices: 765238--765363 Score: 216
Period size: 43 Copynumber: 3.0 Consensus size: 42
765228 ACGAAGGGGC
* *
765238 CATCCACGATCTCAACTCCACGATGGAGGATATCGTGACCACA
1 CATCCACGATTTCAACTCCACGACGGAGGATATCGT-ACCACA
765281 CATCCACGATTTCAACTCCACGACGGAGGATATCGTACCCACA
1 CATCCACGATTTCAACTCCACGACGGAGGATATCGTA-CCACA
765324 CATCCACGATTTCAACTCCACGACGGAGGATATCGTACCA
1 CATCCACGATTTCAACTCCACGACGGAGGATATCGTACCA
765364 TTTAAGGCTC
Statistics
Matches: 80, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
42 4 0.05
43 76 0.95
ACGTcount: A:0.30, C:0.33, G:0.17, T:0.19
Consensus pattern (42 bp):
CATCCACGATTTCAACTCCACGACGGAGGATATCGTACCACA
Found at i:767489 original size:6 final size:6
Alignment explanation
Indices: 767466--767507 Score: 57
Period size: 6 Copynumber: 6.8 Consensus size: 6
767456 AAGGGTAATT
* *
767466 AATTTG AATTGA ATATTTA AATTTA AATTTA AATTTA AATTT
1 AATTTA AATTTA A-ATTTA AATTTA AATTTA AATTTA AATTT
767508 TTGTAATTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
6 27 0.84
7 5 0.16
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (6 bp):
AATTTA
Found at i:767501 original size:18 final size:19
Alignment explanation
Indices: 767466--767507 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
767456 AAGGGTAATT
*
767466 AATTTGAATTGAATATTTA
1 AATTTAAATTGAATATTTA
*
767485 AATTTAAATTTAA-ATTTA
1 AATTTAAATTGAATATTTA
767503 AATTT
1 AATTT
767508 TTGTAATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (19 bp):
AATTTAAATTGAATATTTA
Found at i:780777 original size:29 final size:30
Alignment explanation
Indices: 780744--780808 Score: 82
Period size: 29 Copynumber: 2.2 Consensus size: 30
780734 AAATGATGCT
* *
780744 TAAATTTA-TTAATATTATAATATATA-AAA
1 TAAATTAATTTAA-ATTATAATAAATAGAAA
780773 TAAATTAATTTAAATTATAATAAATAGAAA
1 TAAATTAATTTAAATTATAATAAATAGAAA
780803 -AAATTA
1 TAAATTA
780809 TGACAATTCA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 25 0.78
30 7 0.22
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (30 bp):
TAAATTAATTTAAATTATAATAAATAGAAA
Found at i:781205 original size:17 final size:18
Alignment explanation
Indices: 781182--781221 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
781172 AAAATAAACT
781182 TAAATAAATAA-AATTTTA
1 TAAAT-AATAATAATTTTA
781200 -AAATAATAATAATTTTA
1 TAAATAATAATAATTTTA
781217 TAAAT
1 TAAAT
781222 TTAAACTTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
16 5 0.25
17 11 0.55
18 4 0.20
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
TAAATAATAATAATTTTA
Found at i:784160 original size:2 final size:2
Alignment explanation
Indices: 784153--784177 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
784143 TATTATTTAA
784153 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
784178 AGAATAGGAT
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:784225 original size:16 final size:16
Alignment explanation
Indices: 784191--784234 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
784181 ATAGGATAAA
*
784191 AATAATAAT-TAAAGC
1 AATAATAATATAAAAC
*
784206 AATAATAATATAAAAT
1 AATAATAATATAAAAC
*
784222 AATAATAAAATAA
1 AATAATAATATAA
784235 TATTTCAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
15 9 0.36
16 16 0.64
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.27
Consensus pattern (16 bp):
AATAATAATATAAAAC
Found at i:784269 original size:27 final size:27
Alignment explanation
Indices: 784218--784269 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
784208 TAATAATATA
*
784218 AAATAATAATAAAATAATATTTCAAAT
1 AAATAATAATAAAAGAATATTTCAAAT
*
784245 AAATAATGATAAAAGAA-ATTATCAA
1 AAATAATAATAAAAGAATATT-TCAA
784270 TTATAAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 3 0.14
27 19 0.86
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.29
Consensus pattern (27 bp):
AAATAATAATAAAAGAATATTTCAAAT
Found at i:785754 original size:3 final size:3
Alignment explanation
Indices: 785748--785805 Score: 73
Period size: 3 Copynumber: 19.7 Consensus size: 3
785738 ATTTTTTATT
* * *
785748 TAA TAA TAA T-A TAA TAA TAA TAA AAA TAA TAA TAA AAA TAA TAA AAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
785795 TAA AAA TAA TA
1 TAA TAA TAA TA
785806 TGAAAAAATT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
2 2 0.04
3 44 0.96
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:786019 original size:45 final size:45
Alignment explanation
Indices: 785953--786047 Score: 145
Period size: 45 Copynumber: 2.1 Consensus size: 45
785943 AAAGTCCTAT
* * * *
785953 CATCTTGCACTGTAGGTCTTACAGATGATCCGAAGGTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
785998 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
*
786043 TATCA
1 CATCA
786048 AAAAGCTCCC
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (45 bp):
CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
Found at i:786123 original size:45 final size:45
Alignment explanation
Indices: 786055--786168 Score: 156
Period size: 45 Copynumber: 2.5 Consensus size: 45
786045 TCAAAAAGCT
* *
786055 CCCGAAGGCTTTTTGAAAACATCATGCACTGCAGGTCTTATGGACGA
1 CCCGAAGG--TTTTGAAAACATCATGCACTGAAGGTCTTATAGACGA
* * *
786102 CCCGAAGGTTTTGAAAGCATCATGCACTGAAGGTTTTATAGATGA
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGTCTTATAGACGA
*
786147 CCCGAAGGTTTTGAAAATATCA
1 CCCGAAGGTTTTGAAAACATCA
786169 AAAAGCTCCT
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
45 52 0.87
47 8 0.13
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (45 bp):
CCCGAAGGTTTTGAAAACATCATGCACTGAAGGTCTTATAGACGA
Found at i:786172 original size:121 final size:121
Alignment explanation
Indices: 785953--786284 Score: 556
Period size: 121 Copynumber: 2.7 Consensus size: 121
785943 AAAGTCCTAT
* * ** * * *
785953 CATCTTGCACTGTAGGTCTTACAGATGATCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTT
1 CATCATGCACTGCAGGTCTTATGGATGACCCGAAGGTTTTGAAAGCATCATGCACTGAAGGTCTT
786018 ACAGATGACCCGAAGGTTTTGAAAATATCAAAAAGCTCCCGAAGGCTTTTTGAAAA
66 ACAGATGACCCGAAGGTTTTGAAAATATCAAAAAGCTCCCGAAGGCTTTTTGAAAA
* *
786074 CATCATGCACTGCAGGTCTTATGGACGACCCGAAGGTTTTGAAAGCATCATGCACTGAAGGTTTT
1 CATCATGCACTGCAGGTCTTATGGATGACCCGAAGGTTTTGAAAGCATCATGCACTGAAGGTCTT
* *
786139 ATAGATGACCCGAAGGTTTTGAAAATATCAAAAAGCTCCTGAAGGCTTTTTGAAAA
66 ACAGATGACCCGAAGGTTTTGAAAATATCAAAAAGCTCCCGAAGGCTTTTTGAAAA
*
786195 CATCATGCACTTCAGGTCTTATGGATGACCCGAAGGTTTTGAAAGCATCATGCACTGAAGGTCTT
1 CATCATGCACTGCAGGTCTTATGGATGACCCGAAGGTTTTGAAAGCATCATGCACTGAAGGTCTT
786260 ACAGATGACCCGAAGGTTTTGAAAA
66 ACAGATGACCCGAAGGTTTTGAAAA
786285 CATTATGCAT
Statistics
Matches: 196, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
121 196 1.00
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (121 bp):
CATCATGCACTGCAGGTCTTATGGATGACCCGAAGGTTTTGAAAGCATCATGCACTGAAGGTCTT
ACAGATGACCCGAAGGTTTTGAAAATATCAAAAAGCTCCCGAAGGCTTTTTGAAAA
Found at i:786237 original size:166 final size:165
Alignment explanation
Indices: 786055--786598 Score: 820
Period size: 166 Copynumber: 3.3 Consensus size: 165
786045 TCAAAAAGCT
* ** * *
786055 CCCGAAGGCTTTTTGAAAACATCATGCACTGCAGGTCTTATGGACGACCCGAAGGTTTTGAAAGC
1 CCCGAAGG--TTTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGGTTTTGAAAAC
* *
786120 ATCATGCACTGAAGGTTTTATAGATGACCCGAAGGTTTTGAAAATATCAAAAAGCTCCTGAAGGC
64 ATCATGCACTGAAGG-ATTACAGATGACCCGAAGGTTTTGAAAATATCAAAAAGCTCCTGAAGGC
*
786185 TTTTTGAAAACATCATGCACTTCAGGTCTTATGGATGA
128 TTTTTGAAAACATCATGCACTGCAGGTCTTATGGATGA
*
786223 CCCGAAGGTTTTGAAAGCATCATGCACTGAAGGTCTTACAGATGACCCGAAGGTTTTGAAAACAT
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGGTTTTGAAAACAT
* * * * *
786288 TATGCATTGAATGGCTTACAGATGACCCGAAGATTTTGAAAATATCAAAAAGCTCCCGAAGGCTT
66 CATGCACTGAA-GGATTACAGATGACCCGAAGGTTTTGAAAATATCAAAAAGCTCCTGAAGGCTT
* *
786353 TTTGAAAACATCCTTCACTGCAGGTCTTATGGATGA
130 TTTGAAAACATCATGCACTGCAGGTCTTATGGATGA
* *
786389 CCTGAAGGTTTTGAAAGCATCATGCACTGAAGGTCTTACAGATGACCCGAAGGTTTTGAAAACAT
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGGTTTTGAAAACAT
786454 CATGCACTGAAGGGATTACAGATGACCCGAAGGTTTTGAAAATATCAAAAAGCT-CTCGAAGGCT
66 CATGCACTGAA-GGATTACAGATGACCCGAAGGTTTTGAAAATATCAAAAAGCTCCT-GAAGGCT
* * *
786518 TTTTGAAAACATCTTGCACTGCATGTCTTATGAATGA
129 TTTTGAAAACATCATGCACTGCAGGTCTTATGGATGA
* *
786555 CCCGAAAGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATG
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGTCTTACAGATG
786599 GTGGGAAATA
Statistics
Matches: 344, Mismatches: 30, Indels: 6
0.91 0.08 0.02
Matches are distributed among these distances:
165 1 0.00
166 333 0.97
167 2 0.01
168 8 0.02
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (165 bp):
CCCGAAGGTTTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGGTTTTGAAAACAT
CATGCACTGAAGGATTACAGATGACCCGAAGGTTTTGAAAATATCAAAAAGCTCCTGAAGGCTTT
TTGAAAACATCATGCACTGCAGGTCTTATGGATGA
Found at i:786245 original size:45 final size:45
Alignment explanation
Indices: 786186--786334 Score: 194
Period size: 45 Copynumber: 3.3 Consensus size: 45
786176 CCTGAAGGCT
* **
786186 TTTTGAAAACATCATGCACTTCAGGTCTTATGGATGACCCGAAGG
1 TTTTGAAAACATCATGCACTTAAGGTCTTACAGATGACCCGAAGG
* *
786231 TTTTGAAAGCATCATGCACTGAAGGTCTTACAGATGACCCGAAGG
1 TTTTGAAAACATCATGCACTTAAGGTCTTACAGATGACCCGAAGG
* *
786276 TTTTGAAAACATTATGCA-TTGAATGG-CTTACAGATGACCCGAAGA
1 TTTTGAAAACATCATGCACTT-AA-GGTCTTACAGATGACCCGAAGG
*
786321 TTTTGAAAATATCA
1 TTTTGAAAACATCA
786335 AAAAGCTCCC
Statistics
Matches: 91, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
44 1 0.01
45 88 0.97
46 2 0.02
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (45 bp):
TTTTGAAAACATCATGCACTTAAGGTCTTACAGATGACCCGAAGG
Found at i:786356 original size:121 final size:119
Alignment explanation
Indices: 786223--786455 Score: 324
Period size: 121 Copynumber: 1.9 Consensus size: 119
786213 TTATGGATGA
*
786223 CCCGAAGGTTTTGAAAGCATCATGCACTGAAGGTCTTACAGATGACCCGAAGGTTTTGAAAACAT
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGGTTTTGAAAACAT
* * *
786288 TATGCATTGAATGG-CTTACAGATGACCCGAAGATTTTGAAAATATCAAAAAGCT
66 CATGCACTGAA-GGTCTTACAGATGACCCGAAGATTTTGAAAACATCAAAAAGCT
* * * ** * *
786342 CCCGAAGGCTTTTTGAAAACATCCTTCACTGCAGGTCTTATGGATGACCTGAAGGTTTTGAAAGC
1 CCCGAAGG--TTTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGGTTTTGAAAAC
*
786407 ATCATGCACTGAAGGTCTTACAGATGACCCGAAGGTTTTGAAAACATCA
64 ATCATGCACTGAAGGTCTTACAGATGACCCGAAGATTTTGAAAACATCA
786456 TGCACTGAAG
Statistics
Matches: 99, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
119 8 0.08
120 2 0.02
121 89 0.90
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (119 bp):
CCCGAAGGTTTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGGTTTTGAAAACAT
CATGCACTGAAGGTCTTACAGATGACCCGAAGATTTTGAAAACATCAAAAAGCT
Found at i:786417 original size:45 final size:45
Alignment explanation
Indices: 786342--786500 Score: 210
Period size: 45 Copynumber: 3.5 Consensus size: 45
786332 TCAAAAAGCT
* * * **
786342 CCCGAAGGCTTTTTGAAAACATCCTTCACTGCAGGTCTTATGGATGA
1 CCCGAAGG--TTTTGAAAACATCATGCACTGAAGGTCTTACAGATGA
* *
786389 CCTGAAGGTTTTGAAAGCATCATGCACTGAAGGTCTTACAGATGA
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGTCTTACAGATGA
**
786434 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGATTACAGATGA
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGTCTTACAGATGA
*
786479 CCCGAAGGTTTTGAAAATATCA
1 CCCGAAGGTTTTGAAAACATCA
786501 AAAAGCTCTC
Statistics
Matches: 100, Mismatches: 12, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
45 93 0.93
47 7 0.07
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.26
Consensus pattern (45 bp):
CCCGAAGGTTTTGAAAACATCATGCACTGAAGGTCTTACAGATGA
Found at i:787310 original size:22 final size:22
Alignment explanation
Indices: 787255--787312 Score: 98
Period size: 22 Copynumber: 2.6 Consensus size: 22
787245 AATAAAGCTT
*
787255 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAGAGAGAATCTA
787277 TCATCTTTGAAGAGAGAATCTA
1 TCATCTTTGAAGAGAGAATCTA
*
787299 TTATCTTTGAAGAG
1 TCATCTTTGAAGAG
787313 TGTAGATGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.34
Consensus pattern (22 bp):
TCATCTTTGAAGAGAGAATCTA
Found at i:787750 original size:54 final size:54
Alignment explanation
Indices: 787635--787775 Score: 140
Period size: 54 Copynumber: 2.6 Consensus size: 54
787625 GAATAACTGG
* * * * * *
787635 TTCGTAAAACATGTGACAATACATTAATCCTTTCTCGTGGCTTCTACCCGGATT
1 TTCGTAAAGCATTTGACAACACACTCATCCTTTCTCGTGGCTTCTACCCAGATT
* * * ** *
787689 TTCGTAAAGCTTTTGATAACACACTCATCCTTTCTTGTGGCTTCTGGCTAGATGT
1 TTCGTAAAGCATTTGACAACACACTCATCCTTTCTCGTGGCTTCTACCCAGAT-T
* *
787744 TT-GTAAAGCATTTGACAACATATTCATCCTTT
1 TTCGTAAAGCATTTGACAACACACTCATCCTTT
787776 TCTATGATTT
Statistics
Matches: 70, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
54 67 0.96
55 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.38
Consensus pattern (54 bp):
TTCGTAAAGCATTTGACAACACACTCATCCTTTCTCGTGGCTTCTACCCAGATT
Found at i:788793 original size:75 final size:74
Alignment explanation
Indices: 788651--788819 Score: 191
Period size: 75 Copynumber: 2.3 Consensus size: 74
788641 GATATATGCC
* * *
788651 TTCAACATGTCCCAACAATTGCTAATACGAACGTTCAAAATACGTCAACATTCCTATTCCTATTT
1 TTCAGCATGCCCCAAC-ATTGCTAATACGAACGTTCAAAATACATCAACATTCCTATTCCTATTT
* *
788716 GAAATGGGCT
65 GAAATGAGAT
* *
788726 TTCAGCATGCCCCAACATTGGTTAATAC-AATCGTTCCAAATACATCAACATTCCTGATT-CTGA
1 TTCAGCATGCCCCAACATT-GCTAATACGAA-CGTTCAAAATACATCAACATTCCT-ATTCCT-A
788789 -TTGAAATGAGAT
62 TTTGAAATGAGAT
* *
788801 TTCAGCATGCTCCATCATT
1 TTCAGCATGCCCCAACATT
788820 TGCTTCTTGT
Statistics
Matches: 81, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
74 5 0.06
75 72 0.89
76 4 0.05
ACGTcount: A:0.32, C:0.24, G:0.12, T:0.31
Consensus pattern (74 bp):
TTCAGCATGCCCCAACATTGCTAATACGAACGTTCAAAATACATCAACATTCCTATTCCTATTTG
AAATGAGAT
Found at i:790316 original size:35 final size:36
Alignment explanation
Indices: 790258--790328 Score: 135
Period size: 35 Copynumber: 2.0 Consensus size: 36
790248 TATGTGCAGG
790258 GGGAACAGATTCCCCCCTGGGGGGTATCGATTCCCC
1 GGGAACAGATTCCCCCCTGGGGGGTATCGATTCCCC
790294 GGGAACAGATT-CCCCCTGGGGGGTATCGATTCCCC
1 GGGAACAGATTCCCCCCTGGGGGGTATCGATTCCCC
790329 CCTAAATGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 24 0.69
36 11 0.31
ACGTcount: A:0.17, C:0.32, G:0.31, T:0.20
Consensus pattern (36 bp):
GGGAACAGATTCCCCCCTGGGGGGTATCGATTCCCC
Found at i:791020 original size:12 final size:12
Alignment explanation
Indices: 791003--791029 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
790993 TAGGTGATAC
791003 ATGTGATATGAT
1 ATGTGATATGAT
791015 ATGTGATATGAT
1 ATGTGATATGAT
791027 ATG
1 ATG
791030 AAATACATGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.26, T:0.41
Consensus pattern (12 bp):
ATGTGATATGAT
Found at i:791234 original size:39 final size:38
Alignment explanation
Indices: 791191--791272 Score: 110
Period size: 39 Copynumber: 2.1 Consensus size: 38
791181 GACATAGGAT
* *
791191 AGGTCTTACGGGACATAGATTACATCATTCGGGGATGAC
1 AGGTCTTACGGGACACAGATGACATCATTC-GGGATGAC
* * *
791230 AGGTCTTTCGGGACACAGATGACATCCTTCGGGATGAT
1 AGGTCTTACGGGACACAGATGACATCATTCGGGATGAC
791268 AGGTC
1 AGGTC
791273 CTTCGAGACA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
38 12 0.32
39 26 0.68
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.26
Consensus pattern (38 bp):
AGGTCTTACGGGACACAGATGACATCATTCGGGATGAC
Done.