Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008078.1 Hibiscus syriacus cultivar Beakdansim tig00110580_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: 1434613
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 7
Found at i:670139 original size:22 final size:22
Alignment explanation
Indices: 670111--670158 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
670101 TAAATTTGTT
670111 AAAATTATAAATTATAAAAATA
1 AAAATTATAAATTATAAAAATA
670133 AAAATTATAAATTATAAAAATA
1 AAAATTATAAATTATAAAAATA
670155 AAAA
1 AAAA
670159 ATTCCAACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (22 bp):
AAAATTATAAATTATAAAAATA
Found at i:670990 original size:21 final size:21
Alignment explanation
Indices: 670966--671009 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
670956 AATATGTAAA
* *
670966 TCGCATTATGATTTTCCAAAT
1 TCGCATTACGATATTCCAAAT
* *
670987 TCGCGTTGCGATATTCCAAAT
1 TCGCATTACGATATTCCAAAT
671008 TC
1 TC
671010 TCAACGCGAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.39
Consensus pattern (21 bp):
TCGCATTACGATATTCCAAAT
Found at i:671028 original size:20 final size:20
Alignment explanation
Indices: 671003--671067 Score: 112
Period size: 20 Copynumber: 3.2 Consensus size: 20
670993 TGCGATATTC
671003 CAAATTCTCAACGCGATAGT
1 CAAATTCTCAACGCGATAGT
671023 CAAATTCTCAACGCGATAGT
1 CAAATTCTCAACGCGATAGT
* *
671043 CAAATTCGCAACGCGAAAGT
1 CAAATTCTCAACGCGATAGT
671063 CAAAT
1 CAAAT
671068 GTTTTTACGC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.38, C:0.25, G:0.15, T:0.22
Consensus pattern (20 bp):
CAAATTCTCAACGCGATAGT
Found at i:673514 original size:4 final size:4
Alignment explanation
Indices: 673505--673546 Score: 57
Period size: 4 Copynumber: 10.5 Consensus size: 4
673495 TTTTCCGGCA
* * *
673505 TTAT TTAT TTAT TTAT TTAC TTAT TTAT ATAT TAAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
673547 TTAGCGGCCT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (4 bp):
TTAT
Found at i:673712 original size:21 final size:21
Alignment explanation
Indices: 673686--673730 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
673676 GCCCGATGCA
*
673686 CCTATCATCATTC-AAGAGGCC
1 CCTATCATCA-TCGAAGAAGCC
673707 CCTATCATCATCGAAGAAGCC
1 CCTATCATCATCGAAGAAGCC
673728 CCT
1 CCT
673731 CTTACCGTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 2 0.09
21 20 0.91
ACGTcount: A:0.29, C:0.36, G:0.13, T:0.22
Consensus pattern (21 bp):
CCTATCATCATCGAAGAAGCC
Found at i:675563 original size:39 final size:39
Alignment explanation
Indices: 675509--675595 Score: 165
Period size: 39 Copynumber: 2.2 Consensus size: 39
675499 TCAAGTTGTA
675509 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
*
675548 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
675587 GATTTTGAT
1 GATTTTGAT
675596 GAGCATCGGA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.17, C:0.15, G:0.21, T:0.47
Consensus pattern (39 bp):
GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
Found at i:676319 original size:25 final size:25
Alignment explanation
Indices: 676285--676334 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
676275 ATTATTTTTC
* *
676285 CAAATAATGTACCCATAACAATGTT
1 CAAATAATGTACCAACAACAATGTT
676310 CAAATAATGTACCAACAACAATGTT
1 CAAATAATGTACCAACAACAATGTT
676335 TAATTGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.46, C:0.20, G:0.08, T:0.26
Consensus pattern (25 bp):
CAAATAATGTACCAACAACAATGTT
Found at i:676425 original size:20 final size:20
Alignment explanation
Indices: 676400--676470 Score: 106
Period size: 20 Copynumber: 3.5 Consensus size: 20
676390 TTTTGAAGGT
*
676400 AAATTCGCAACGCGAAAGTC
1 AAATTCGCAACACGAAAGTC
*
676420 AAATTCGCAACACGAAAGTT
1 AAATTCGCAACACGAAAGTC
* *
676440 AAATTCGCTACACGATAGTC
1 AAATTCGCAACACGAAAGTC
676460 AAATTCGCAAC
1 AAATTCGCAAC
676471 GCTTATTTCG
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.41, C:0.24, G:0.15, T:0.20
Consensus pattern (20 bp):
AAATTCGCAACACGAAAGTC
Found at i:676812 original size:18 final size:18
Alignment explanation
Indices: 676789--676824 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
676779 AAGTCGGTTG
676789 TGATTGAGATTTTGATTT
1 TGATTGAGATTTTGATTT
*
676807 TGATTGCGATTTTGATTT
1 TGATTGAGATTTTGATTT
676825 CCTTTTGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.19, C:0.03, G:0.22, T:0.56
Consensus pattern (18 bp):
TGATTGAGATTTTGATTT
Found at i:679114 original size:24 final size:24
Alignment explanation
Indices: 679087--679140 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
679077 CCATCACATC
*
679087 ATCAAAATCCGAGTATTGATCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* * *
679111 ATCAAAGTCTGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
679135 ATCAAA
1 ATCAAA
679141 TTTCGAATAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.41, C:0.17, G:0.19, T:0.24
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:680059 original size:19 final size:20
Alignment explanation
Indices: 680035--680085 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
680025 ACTAAAACCT
680035 GTTGCGAATTTGAAATTC-A
1 GTTGCGAATTTGAAATTCGA
** *
680054 GTTGCGAATTTGACTTTCGC
1 GTTGCGAATTTGAAATTCGA
680074 GTTGCGAATTTG
1 GTTGCGAATTTG
680086 GAATATCGCA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 16 0.57
20 12 0.43
ACGTcount: A:0.22, C:0.14, G:0.25, T:0.39
Consensus pattern (20 bp):
GTTGCGAATTTGAAATTCGA
Found at i:680101 original size:21 final size:21
Alignment explanation
Indices: 680077--680116 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
680067 CTTTCGCGTT
*
680077 GCGAATTTGGAATATCGCAAC
1 GCGAATTTGGAAAATCGCAAC
680098 GCGAATTTGGAAAATCGCA
1 GCGAATTTGGAAAATCGCA
680117 TTTACATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (21 bp):
GCGAATTTGGAAAATCGCAAC
Found at i:680174 original size:20 final size:20
Alignment explanation
Indices: 680124--680196 Score: 71
Period size: 20 Copynumber: 3.7 Consensus size: 20
680114 GCATTTACAT
680124 ATTCGCGTTGCGAAATTGGA
1 ATTCGCGTTGCGAAATTGGA
* *
680144 A-ACTGTGTTGCGAAATTGGA
1 ATTC-GCGTTGCGAAATTGGA
* *
680164 ATTCGCATTGCG-AATTTGA
1 ATTCGCGTTGCGAAATTGGA
680183 GA-TCGCGTTGCGAA
1 -ATTCGCGTTGCGAA
680197 TTTGTTGGTC
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
19 16 0.38
20 25 0.60
21 1 0.02
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (20 bp):
ATTCGCGTTGCGAAATTGGA
Found at i:689304 original size:16 final size:16
Alignment explanation
Indices: 689293--689378 Score: 64
Period size: 16 Copynumber: 5.4 Consensus size: 16
689283 TTATGTGTTA
689293 ATATATACATGTTTAT
1 ATATATACATGTTTAT
* * *
689309 ATATATATATATATAT
1 ATATATACATGTTTAT
* * *
689325 ATATATATATATATAT
1 ATATATACATGTTTAT
* * *
689341 ATATATATATATATAT
1 ATATATACATGTTTAT
* * *
689357 ATATATATATATATAT
1 ATATATACATGTTTAT
689373 ATATAT
1 ATATAT
689379 GTTACTTATT
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 67 1.00
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (16 bp):
ATATATACATGTTTAT
Found at i:689311 original size:2 final size:2
Alignment explanation
Indices: 689306--689378 Score: 146
Period size: 2 Copynumber: 36.5 Consensus size: 2
689296 TATACATGTT
689306 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
689348 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
689379 GTTACTTATT
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 71 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:695715 original size:19 final size:22
Alignment explanation
Indices: 695693--695740 Score: 57
Period size: 23 Copynumber: 2.3 Consensus size: 22
695683 GATATGATCC
695693 ATTTATT-AAA-T-ATTAATTA
1 ATTTATTCAAATTAATTAATTA
*
695712 ATTTGCTTCAAATTAATTAATTA
1 ATTT-ATTCAAATTAATTAATTA
695735 ATTTAT
1 ATTTAT
695741 AAAAAATTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
19 4 0.17
20 2 0.09
21 3 0.13
22 2 0.09
23 12 0.52
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (22 bp):
ATTTATTCAAATTAATTAATTA
Found at i:696199 original size:2 final size:2
Alignment explanation
Indices: 696194--696271 Score: 156
Period size: 2 Copynumber: 39.0 Consensus size: 2
696184 ATTTTTTTAT
696194 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
696236 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
696272 ATAAACCTTA
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 76 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:698142 original size:3 final size:3
Alignment explanation
Indices: 698095--698131 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
698085 AACACAAGTA
*
698095 AAT AAT AAT AAT AAT AAT AAT AAT AAG AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
698132 TTTTAATAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:702333 original size:18 final size:18
Alignment explanation
Indices: 702310--702346 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
702300 ATGGCCTTCC
702310 ATTTTCTGAAGGTATCAA
1 ATTTTCTGAAGGTATCAA
702328 ATTTTCTGAAGGTATCAA
1 ATTTTCTGAAGGTATCAA
702346 A
1 A
702347 GACTTCTGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.38
Consensus pattern (18 bp):
ATTTTCTGAAGGTATCAA
Found at i:702355 original size:19 final size:18
Alignment explanation
Indices: 702313--702355 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
702303 GCCTTCCATT
**
702313 TTCTGAAGGTATCAAATT
1 TTCTGAAGGTATCAAAAC
702331 TTCTGAAGGTATCAAAGAC
1 TTCTGAAGGTATCAAA-AC
702350 TTCTGA
1 TTCTGA
702356 TTTCTTCTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 16 0.73
19 6 0.27
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.35
Consensus pattern (18 bp):
TTCTGAAGGTATCAAAAC
Found at i:708588 original size:17 final size:15
Alignment explanation
Indices: 708546--708593 Score: 53
Period size: 17 Copynumber: 3.1 Consensus size: 15
708536 TATCTTGAAT
708546 TAATCAATATTTTAAA
1 TAATCAAT-TTTTAAA
*
708562 -AATTAATTTTTACATA
1 TAATCAATTTTTA-A-A
708578 TAATCAATTTTTAAA
1 TAATCAATTTTTAAA
708593 T
1 T
708594 TCATAATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
14 5 0.19
15 9 0.33
16 2 0.07
17 11 0.41
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (15 bp):
TAATCAATTTTTAAA
Found at i:713401 original size:27 final size:26
Alignment explanation
Indices: 713361--713413 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 26
713351 AGAAGAACGG
*
713361 CGAGGAGAGGAGAATTTGGGAATGGA
1 CGAGGAGAGGAGAAATTGGGAATGGA
*
713387 CGAGCGAGGGGAGAAATTGGGAATGGA
1 CGAG-GAGAGGAGAAATTGGGAATGGA
713414 TGCGCAAGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 4 0.17
27 20 0.83
ACGTcount: A:0.34, C:0.06, G:0.47, T:0.13
Consensus pattern (26 bp):
CGAGGAGAGGAGAAATTGGGAATGGA
Found at i:713423 original size:27 final size:27
Alignment explanation
Indices: 713369--713423 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
713359 GGCGAGGAGA
* *
713369 GGAGAATTTGGGAATGGACGAGCGAGG
1 GGAGAAATTGGGAATGGACGAGCAAGG
* *
713396 GGAGAAATTGGGAATGGATGCGCAAGG
1 GGAGAAATTGGGAATGGACGAGCAAGG
713423 G
1 G
713424 TTAGGGATTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.31, C:0.07, G:0.47, T:0.15
Consensus pattern (27 bp):
GGAGAAATTGGGAATGGACGAGCAAGG
Found at i:715026 original size:12 final size:12
Alignment explanation
Indices: 715009--715038 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
714999 ACACTAAGAA
715009 CAAAACAATATT
1 CAAAACAATATT
715021 CAAAACAATATT
1 CAAAACAATATT
715033 CAAAAC
1 CAAAAC
715039 TTAAAGCCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.60, C:0.20, G:0.00, T:0.20
Consensus pattern (12 bp):
CAAAACAATATT
Found at i:716261 original size:3 final size:3
Alignment explanation
Indices: 716255--716279 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
716245 CACCACCATT
716255 ATC ATC ATC ATC ATC ATC ATC ATC A
1 ATC ATC ATC ATC ATC ATC ATC ATC A
716280 ATTGGACTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.32, G:0.00, T:0.32
Consensus pattern (3 bp):
ATC
Found at i:723304 original size:15 final size:15
Alignment explanation
Indices: 723284--723313 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
723274 CTTTCTCATA
723284 ATTGTTGTTGGAATT
1 ATTGTTGTTGGAATT
*
723299 ATTGTTGTTGTAATT
1 ATTGTTGTTGGAATT
723314 CCAGCCTCGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.00, G:0.23, T:0.57
Consensus pattern (15 bp):
ATTGTTGTTGGAATT
Found at i:727060 original size:24 final size:25
Alignment explanation
Indices: 727002--727060 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 25
726992 GTGTGTATGC
*
727002 ATGTTTGA-GTATATATTTCTTTGT
1 ATGTTTGATGTATATATTTCTGTGT
** *
727026 CCGTTTG-TGTATGTATTT-TGTGT
1 ATGTTTGATGTATATATTTCTGTGT
727049 ATGTTTGATGTA
1 ATGTTTGATGTA
727061 AAGTGGGGAA
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
23 9 0.33
24 18 0.67
ACGTcount: A:0.17, C:0.05, G:0.22, T:0.56
Consensus pattern (25 bp):
ATGTTTGATGTATATATTTCTGTGT
Found at i:732313 original size:15 final size:17
Alignment explanation
Indices: 732283--732315 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
732273 ATTTTTTCAT
732283 TATATTTAAAATTAAAA
1 TATATTTAAAATTAAAA
732300 TATA-TTAAAA-TAAAA
1 TATATTTAAAATTAAAA
732315 T
1 T
732316 TCAAACTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 6 0.38
17 4 0.25
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TATATTTAAAATTAAAA
Found at i:733483 original size:11 final size:11
Alignment explanation
Indices: 733467--733529 Score: 60
Period size: 11 Copynumber: 5.9 Consensus size: 11
733457 AAAATTACAT
733467 TATTAAAAATA
1 TATTAAAAATA
733478 TATTAAAAATA
1 TATTAAAAATA
* ***
733489 CATTATTGATA
1 TATTAAAAATA
733500 -ATTATAAAAT-
1 TATTA-AAAATA
733510 T-TTAAAAATA
1 TATTAAAAATA
733520 TATTAAAAAT
1 TATTAAAAAT
733530 TCTTTATCTA
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
9 5 0.12
10 8 0.20
11 28 0.68
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (11 bp):
TATTAAAAATA
Found at i:733574 original size:17 final size:16
Alignment explanation
Indices: 733556--733596 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
733546 AATATTTAAT
*
733556 ATATTTCTAATAA-TA
1 ATATTTTTAATAACTA
733571 ATATTTTTAATAACTA
1 ATATTTTTAATAACTA
*
733587 ATTTTTTTAA
1 ATATTTTTAA
733597 ATTATTGTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 12 0.52
16 11 0.48
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (16 bp):
ATATTTTTAATAACTA
Found at i:733742 original size:7 final size:7
Alignment explanation
Indices: 733730--733781 Score: 50
Period size: 7 Copynumber: 7.4 Consensus size: 7
733720 ATTTATAATG
733730 AACCCTA
1 AACCCTA
733737 AACCCTA
1 AACCCTA
*
733744 AAACCTA
1 AACCCTA
**
733751 AACTATA
1 AACCCTA
**
733758 AACTATA
1 AACCCTA
733765 AACCCTA
1 AACCCTA
*
733772 AATCCTA
1 AACCCTA
733779 AAC
1 AAC
733782 TCTTAATCCG
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.50, C:0.31, G:0.00, T:0.19
Consensus pattern (7 bp):
AACCCTA
Found at i:735372 original size:23 final size:23
Alignment explanation
Indices: 735338--735394 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 23
735328 TCAAGCTTGA
*
735338 AATTGAGCTTGAAATC-GAGTTTT
1 AATTGAGTTTG-AATCTGAGTTTT
*
735361 AATTGAGTTTGAGTCTTGAGTTTT
1 AATTGAGTTTGAATC-TGAGTTTT
735385 AATTGAGTTT
1 AATTGAGTTT
735395 TTGAATTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
22 3 0.10
23 10 0.33
24 17 0.57
ACGTcount: A:0.26, C:0.05, G:0.23, T:0.46
Consensus pattern (23 bp):
AATTGAGTTTGAATCTGAGTTTT
Found at i:735403 original size:19 final size:19
Alignment explanation
Indices: 735376--735413 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
735366 AGTTTGAGTC
*
735376 TTGAGTTTTAATTGAGTTT
1 TTGAATTTTAATTGAGTTT
*
735395 TTGAATTTTTATTGAGTTT
1 TTGAATTTTAATTGAGTTT
735414 AAATTTTTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.21, C:0.00, G:0.18, T:0.61
Consensus pattern (19 bp):
TTGAATTTTAATTGAGTTT
Found at i:736912 original size:25 final size:24
Alignment explanation
Indices: 736862--736912 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
736852 TTTTCTTAGC
**
736862 ATTCCTTTTTTTTACTTTACTTTT
1 ATTCCTTTTTTTTACTTTACAATT
736886 ATTCCATTTCTTTTT-CTTTACAATT
1 ATTCC-TTT-TTTTTACTTTACAATT
736911 AT
1 AT
736913 GAATCTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 5 0.22
25 13 0.57
26 5 0.22
ACGTcount: A:0.18, C:0.18, G:0.00, T:0.65
Consensus pattern (24 bp):
ATTCCTTTTTTTTACTTTACAATT
Found at i:737472 original size:18 final size:20
Alignment explanation
Indices: 737437--737474 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
737427 CACGGAATGG
737437 AAGATTATCAATGGGAATAT
1 AAGATTATCAATGGGAATAT
737457 AAGATTATC-A-GGGAATAT
1 AAGATTATCAATGGGAATAT
737475 GATCACTGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.44
19 1 0.06
20 9 0.50
ACGTcount: A:0.45, C:0.05, G:0.21, T:0.29
Consensus pattern (20 bp):
AAGATTATCAATGGGAATAT
Found at i:737698 original size:37 final size:37
Alignment explanation
Indices: 737625--737699 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 37
737615 GTTGGAAAAT
* *
737625 ATTTATATATTTTCTTTAAAAAATTTAAATTCATAAA
1 ATTTATATATTTTCTTTAAAAAATTGAAAATCATAAA
* *
737662 ATTTATATAATTTTTTTTACAAAATTGAAAAT-ATAAA
1 ATTTATAT-ATTTTCTTTAAAAAATTGAAAATCATAAA
737699 A
1 A
737700 AGGTTTAATG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 14 0.42
38 19 0.58
ACGTcount: A:0.48, C:0.04, G:0.01, T:0.47
Consensus pattern (37 bp):
ATTTATATATTTTCTTTAAAAAATTGAAAATCATAAA
Found at i:740237 original size:29 final size:29
Alignment explanation
Indices: 740160--740237 Score: 88
Period size: 29 Copynumber: 2.7 Consensus size: 29
740150 AGTTAGTGGT
*
740160 CAAAATGTAAATTTTGAAAATTTAGTGAC
1 CAAAGTGTAAATTTTGAAAATTTAGTGAC
* *
740189 CAAAGTATAAACTTTGAAAATTTCAAG-GAC
1 CAAAGTGTAAATTTTGAAAATTT--AGTGAC
*
740219 CAAAGTGT-AATTTTAAAAA
1 CAAAGTGTAAATTTTGAAAA
740238 AATATGTACT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
29 29 0.71
30 10 0.24
31 2 0.05
ACGTcount: A:0.47, C:0.09, G:0.13, T:0.31
Consensus pattern (29 bp):
CAAAGTGTAAATTTTGAAAATTTAGTGAC
Found at i:742443 original size:48 final size:48
Alignment explanation
Indices: 742336--742453 Score: 146
Period size: 48 Copynumber: 2.5 Consensus size: 48
742326 ATTATACTTA
* * *
742336 TAACACGTGTCAAACGTCTGTGTGACGGTGGTGCTACTATATGAAACT
1 TAACACATGTCTAACGTCTGTGTGACAGTGGTGCTACTATATGAAACT
* * **
742384 TAACACGTGTCTAACATCTGTGTGACAGTGGTGCTACTATATGGTACT
1 TAACACATGTCTAACGTCTGTGTGACAGTGGTGCTACTATATGAAACT
** *
742432 TAGTACATGTCTGACGTCTGTG
1 TAACACATGTCTAACGTCTGTG
742454 GTGCTAAAGT
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 60 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (48 bp):
TAACACATGTCTAACGTCTGTGTGACAGTGGTGCTACTATATGAAACT
Found at i:742722 original size:30 final size:27
Alignment explanation
Indices: 742663--742722 Score: 66
Period size: 30 Copynumber: 2.1 Consensus size: 27
742653 TAAATATTAT
* *
742663 ATGCTATGAAATGAAAGTGAATGATAC
1 ATGCTATGAAATGAAAGTGAAAGACAC
*
742690 ATGCTATGAAATGAATAAAGTGAAAGGCAC
1 ATGCTATGAAATG---AAAGTGAAAGACAC
742720 ATG
1 ATG
742723 ATTGATCTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 13 0.48
30 14 0.52
ACGTcount: A:0.45, C:0.08, G:0.23, T:0.23
Consensus pattern (27 bp):
ATGCTATGAAATGAAAGTGAAAGACAC
Found at i:745432 original size:2 final size:2
Alignment explanation
Indices: 745425--745460 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
745415 CATGAACCCC
745425 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
745461 GGATGATGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:751009 original size:39 final size:39
Alignment explanation
Indices: 750955--751034 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
750945 ATTCAAAATA
750955 TGTTTTTCTGATATGATCTTTGGAGAGGAGTAACTGACT
1 TGTTTTTCTGATATGATCTTTGGAGAGGAGTAACTGACT
750994 TGTTTTTCTGATATGATCTTTGGAGAGGAGTAACTGACT
1 TGTTTTTCTGATATGATCTTTGGAGAGGAGTAACTGACT
751033 TG
1 TG
751035 ATTTGCCTAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.23, C:0.10, G:0.26, T:0.41
Consensus pattern (39 bp):
TGTTTTTCTGATATGATCTTTGGAGAGGAGTAACTGACT
Found at i:751540 original size:21 final size:21
Alignment explanation
Indices: 751514--751570 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
751504 GAATGACTGC
*
751514 GTCCCGAAGGACCACATAGAT
1 GTCCCGAAAGACCACATAGAT
* *
751535 GTCCCGAAAGACAACATATAT
1 GTCCCGAAAGACCACATAGAT
*
751556 GTCCCGAATGACCAC
1 GTCCCGAAAGACCAC
751571 TCCTTAAGAA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.35, C:0.30, G:0.19, T:0.16
Consensus pattern (21 bp):
GTCCCGAAAGACCACATAGAT
Found at i:751670 original size:21 final size:21
Alignment explanation
Indices: 751615--751671 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
751605 AATAGGTGTA
* *
751615 CCAAAGTACCGCATATATGTT
1 CCAAAGGACCACATATATGTT
**
751636 CCAAAGGATTACATATATG-T
1 CCAAAGGACCACATATATGTT
751656 CTCAAAGGACCACATA
1 C-CAAAGGACCACATA
751672 GAACCCTCGA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
20 2 0.07
21 27 0.93
ACGTcount: A:0.39, C:0.23, G:0.14, T:0.25
Consensus pattern (21 bp):
CCAAAGGACCACATATATGTT
Found at i:754375 original size:23 final size:24
Alignment explanation
Indices: 754331--754378 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
754321 TATGAATGAA
754331 AATTTCAAAAAAAATATGATTTTT
1 AATTTCAAAAAAAATATGATTTTT
*
754355 AATTTTAAAAATAAAT-T-ATTTTT
1 AATTTCAAAAA-AAATATGATTTTT
754378 A
1 A
754379 TATATTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 7 0.32
24 11 0.50
25 4 0.18
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (24 bp):
AATTTCAAAAAAAATATGATTTTT
Found at i:766633 original size:12 final size:12
Alignment explanation
Indices: 766616--766648 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
766606 TTTTTTATCT
766616 GAAATTACAACG
1 GAAATTACAACG
766628 GAAATTACAACG
1 GAAATTACAACG
*
766640 AAAATTACA
1 GAAATTACA
766649 TACTGTGGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.55, C:0.15, G:0.12, T:0.18
Consensus pattern (12 bp):
GAAATTACAACG
Found at i:767313 original size:182 final size:182
Alignment explanation
Indices: 767080--767863 Score: 1037
Period size: 182 Copynumber: 4.4 Consensus size: 182
767070 TGACAGTTTA
* * * *
767080 TGTCGATACTTTATAA-AACTATATCGATCCACATCAATATAAAAGGTAAAAATATGACAAAATC
1 TGTCGATACTTTATAACAA-TATATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACC
* * * * *
767144 GGTCTCGAAAAG-ATAAAACCGGTAAAGTG-GTACCGGATATATTGAAAGTGTTGATACTTTAAT
65 GGTCTC-AAAAGAACAAAACCGGTATAGAGCG-ACCAGATATATTGAAAGTGTCGATACTTTAAT
767207 ATAAGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCATCC-ATAAAG
128 ATAAGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGC-TCCTATAAAG
* *
767262 TGTCGATACTTTATAACAATATATCGATCCATAACGATATAACAGGTAAAAATATGACAAAACTG
1 TGTCGATACTTTATAACAATATATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCG
* * *
767327 GTCTCTAAAGTACAAAACCGGTATAGAGCGACCATATATATTGAAAGTGTCGATACTTTAATATA
66 GTCTCAAAAGAACAAAACCGGTATAGAGCGACCAGATATATTGAAAGTGTCGATACTTTAATATA
* *
767392 AGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAACGCCTATAAA-
131 AGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCTCCTATAAAG
* *
767443 -GT-G-T-C--TAT-AC--TTTA-CGATCCACAACGATATAACAGATAAAAATATGACAAAACCG
1 TGTCGATACTTTATAACAATATATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCG
* * *
767498 GTCTCTAAAGGACAAAACCGGTATAGAGCGACCAAATATATTGAAAGTGTCGATACTTTAATATA
66 GTCTCAAAAGAACAAAACCGGTATAGAGCGACCAGATATATTGAAAGTGTCGATACTTTAATATA
* *
767563 AGTATCGACACTTTGTGAATTTAAAAGAGAAACAATTTTAACGCT-C-ATAAAG
131 AGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTT-A-GCTCCTATAAAG
* * * * *
767615 TGTCGATACTTTATAACAATATATCAATCCAAAATGATATAACATGTAAAAATATGACAAAATCG
1 TGTCGATACTTTATAACAATATATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCG
* * * * * *
767680 ATCTCTAAAGAACAAAATCGGTATAGAGCGACCGGATATATTTAAAGTGTCGATATTTTAATATA
66 GTCTCAAAAGAACAAAACCGGTATAGAGCGACCAGATATATTGAAAGTGTCGATACTTTAATATA
767745 AGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAG-TGCCTATAAAG
131 AGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCT-CCTATAAAG
* * * *
767797 TGTCGATACTTTATAACAATGTATCGGTCCACAACGATATAAGAAGTAAAAATATGACAAAACCG
1 TGTCGATACTTTATAACAATATATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCG
767862 GT
66 GT
767864 AAAGCGCTAC
Statistics
Matches: 532, Mismatches: 50, Indels: 40
0.86 0.08 0.06
Matches are distributed among these distances:
171 143 0.27
172 5 0.01
173 3 0.01
174 3 0.01
175 4 0.01
176 1 0.00
177 1 0.00
178 4 0.01
179 4 0.01
180 3 0.01
181 11 0.02
182 347 0.65
183 3 0.01
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.28
Consensus pattern (182 bp):
TGTCGATACTTTATAACAATATATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCG
GTCTCAAAAGAACAAAACCGGTATAGAGCGACCAGATATATTGAAAGTGTCGATACTTTAATATA
AGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCTCCTATAAAG
Found at i:767571 original size:171 final size:171
Alignment explanation
Indices: 767283--767810 Score: 727
Period size: 171 Copynumber: 3.0 Consensus size: 171
767273 TATAACAATA
* * *
767283 TATCGATCCATAACGATATAACAGGTAAAAATATGACAAAACTGGTCTCTAAAGTACAAAACCGG
1 TATCGATCCAAAACGATATAACA-GTAAAAATATGACAAAACCGGTCTCTAAAGAACAAAACCGG
*
767348 TATAGAGCGACCATATATATTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTTGTGAATT
65 TATAGAGCGACCAAATATATTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTTGTGAATT
767413 TAAAAGAGAAGCAGTTTTAACGCCTATAAAGTGTCTATACTT
130 TAAAAGAGAAGCAGTTTTAACGCCTATAAAGTGTCTATACTT
* *
767455 TA-CGATCCACAACGATATAACAGATAAAAATATGACAAAACCGGTCTCTAAAGGACAAAACCGG
1 TATCGATCCAAAACGATATAACAG-TAAAAATATGACAAAACCGGTCTCTAAAGAACAAAACCGG
767519 TATAGAGCGACCAAATATATTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTTGTGAATT
65 TATAGAGCGACCAAATATATTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTTGTGAATT
* * *
767584 TAAAAGAGAAACAATTTTAACG-CTCATAAAGTGTCGATACTTTATAACAATA
130 TAAAAGAGAAGCAGTTTTAACGCCT-ATAAA--GT-G-T-C--TAT-AC--TT
* * * * *
767636 TATCAATCCAAAATGATATAACATGTAAAAATATGACAAAATCGATCTCTAAAGAACAAAATCGG
1 TATCGATCCAAAACGATATAACA-GTAAAAATATGACAAAACCGGTCTCTAAAGAACAAAACCGG
** * *
767701 TATAGAGCGACCGGATATATTTAAAGTGTCGATATTTTAATATAAGTATCGACACTTTGTGAATT
65 TATAGAGCGACCAAATATATTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTTGTGAATT
** *
767766 TAAAAGAGAAGCAGTTTTAGTGCCTATAAAGTGTCGATACTT
130 TAAAAGAGAAGCAGTTTTAACGCCTATAAAGTGTCTATACTT
767808 TAT
1 TAT
767811 AACAATGTAT
Statistics
Matches: 317, Mismatches: 24, Indels: 30
0.85 0.06 0.08
Matches are distributed among these distances:
170 3 0.01
171 146 0.46
172 6 0.02
173 2 0.01
174 3 0.01
175 3 0.01
176 1 0.00
177 1 0.00
178 4 0.01
179 3 0.01
180 2 0.01
181 3 0.01
182 137 0.43
183 3 0.01
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.29
Consensus pattern (171 bp):
TATCGATCCAAAACGATATAACAGTAAAAATATGACAAAACCGGTCTCTAAAGAACAAAACCGGT
ATAGAGCGACCAAATATATTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTTGTGAATTT
AAAAGAGAAGCAGTTTTAACGCCTATAAAGTGTCTATACTT
Found at i:767750 original size:353 final size:353
Alignment explanation
Indices: 767104--767809 Score: 1087
Period size: 353 Copynumber: 2.0 Consensus size: 353
767094 AAAACTATAT
* * * *
767104 CGATCCACATCAATATAAAAGGTAAAAATATGACAAAATCGGTCTCGAAAAGATAAAACCGGTAA
1 CGATCCACAACAATATAAAAGATAAAAATATGACAAAACCGGTCTCGAAAAGACAAAACCGGTAA
* ** *
767169 AGTGGTACCGGATATATTGAAAGTGTTGATACTTTAATATAAGTATCGACACTTTGTGAATTTAA
66 AGAGGTACCAAATATATTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTTGTGAATTTAA
* * * *
767234 AAGAGAAGCAGTTTTAGCATCCATAAAGTGTCGATACTTTATAACAATATATCGATCCATAACGA
131 AAGAGAAACAATTTTAGCATCCATAAAGTGTCGATACTTTATAACAATATATCAATCCAAAACGA
* * *
767299 TATAACAGGTAAAAATATGACAAAACTGGTCTCTAAAGTACAAAACCGGTATAGAGCGACCATAT
196 TATAACAGGTAAAAATATGACAAAACTGATCTCTAAAGAACAAAACCGGTATAGAGCGACCAGAT
767364 ATATTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTT
261 ATATTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTT
*
767429 TTAACGCCTATAAAGTGTCTATACTTTA
326 TTAACGCCTATAAAGTGTCGATACTTTA
* * * * *
767457 CGATCCACAACGATATAACAGATAAAAATATGACAAAACCGGTCTCTAAAGGACAAAACCGGTAT
1 CGATCCACAACAATATAAAAGATAAAAATATGACAAAACCGGTCTCGAAAAGACAAAACCGGTAA
767522 AGAGCG-ACCAAATATATTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTTGTGAATTTA
66 AGAG-GTACCAAATATATTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTTGTGAATTTA
767586 AAAGAGAAACAATTTTAACGC-T-CATAAAGTGTCGATACTTTATAACAATATATCAATCCAAAA
130 AAAGAGAAACAATTTT-A-GCATCCATAAAGTGTCGATACTTTATAACAATATATCAATCCAAAA
* * *
767649 TGATATAACATGTAAAAATATGACAAAA-TCGATCTCTAAAGAACAAAATCGGTATAGAGCGACC
193 CGATATAACAGGTAAAAATATGACAAAACT-GATCTCTAAAGAACAAAACCGGTATAGAGCGACC
* * *
767713 GGATATATTTAAAGTGTCGATATTTTAATATAAGTATCGACACTTTGTGAATTTAAAAGAGAAGC
257 AGATATATTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTTGTGAATTTAAAAGAGAAGC
**
767778 AGTTTTAGTGCCTATAAAGTGTCGATACTTTA
322 AGTTTTAACGCCTATAAAGTGTCGATACTTTA
767810 TAACAATGTA
Statistics
Matches: 320, Mismatches: 29, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
352 1 0.00
353 314 0.98
354 3 0.01
355 2 0.01
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.28
Consensus pattern (353 bp):
CGATCCACAACAATATAAAAGATAAAAATATGACAAAACCGGTCTCGAAAAGACAAAACCGGTAA
AGAGGTACCAAATATATTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTTGTGAATTTAA
AAGAGAAACAATTTTAGCATCCATAAAGTGTCGATACTTTATAACAATATATCAATCCAAAACGA
TATAACAGGTAAAAATATGACAAAACTGATCTCTAAAGAACAAAACCGGTATAGAGCGACCAGAT
ATATTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTT
TTAACGCCTATAAAGTGTCGATACTTTA
Found at i:770275 original size:19 final size:21
Alignment explanation
Indices: 770243--770307 Score: 121
Period size: 21 Copynumber: 3.1 Consensus size: 21
770233 AAGACAATCA
770243 AGAGTCGAAGAGAGACTTGAG
1 AGAGTCGAAGAGAGACTTGAG
770264 AGAGTCGAAGAGAGACTTGAG
1 AGAGTCGAAGAGAGACTTGAG
*
770285 AGAGTCGAAGAGACACTTGAG
1 AGAGTCGAAGAGAGACTTGAG
770306 AG
1 AG
770308 CCATAAGGGG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.38, C:0.11, G:0.37, T:0.14
Consensus pattern (21 bp):
AGAGTCGAAGAGAGACTTGAG
Found at i:770380 original size:33 final size:33
Alignment explanation
Indices: 770341--770440 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
770331 AAATAGATGG
*
770341 AGTGGTGAAAGAAGTTGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTTGAGGTGTTAAGGGGTGA
* *
770374 ATTGGTGAAAGAAGTTGAGGTATTAAGGGGTGA
1 AGTGGTGAAAGAAGTTGAGGTGTTAAGGGGTGA
*
770407 AGTGGTGAAAGAAGTTGAGGTGTTTAGGGGTGA
1 AGTGGTGAAAGAAGTTGAGGTGTTAAGGGGTGA
770440 A
1 A
770441 CTTAAGACGG
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 61 1.00
ACGTcount: A:0.30, C:0.00, G:0.44, T:0.26
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTTGAGGTGTTAAGGGGTGA
Found at i:772222 original size:19 final size:19
Alignment explanation
Indices: 772198--772246 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
772188 AATGTAGGGT
*
772198 TAATTTTGTATAGGATTTA
1 TAATTTTGTATACGATTTA
772217 TAATTTTGTATACGATTTA
1 TAATTTTGTATACGATTTA
772236 TAATTTTGTAT
1 TAATTTTGTAT
772247 GTGAATGTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.31, C:0.02, G:0.12, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATACGATTTA
Found at i:773329 original size:399 final size:397
Alignment explanation
Indices: 772582--773733 Score: 1361
Period size: 399 Copynumber: 2.9 Consensus size: 397
772572 GCAGATGTGT
* * *
772582 CGATACATTTATAAAAAGTATCGATCACAAAAATATCGAAACTCATAATTATAATGTAATAGGTA
1 CGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTAT-ATGTAATAGGTA
* * * * *
772647 ATTTTGTAATATAACTGGTATAAATATAC-CAGTTTTATGTGAAAATAGGTCTACATAATGTATC
65 ATTTTGTAATGTAACCGGTATAAATATACTGA-TTTTATGTGAGAATAGGTCTACATAATGTATA
* *
772711 GAC-CTTTTGAAATTGTTGTCGATACTTTTTGTCCAGAATGAAT-CCCAAAATGGTGAACTCATA
129 GACAC-TTTGAAATTGGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGAACCCATA
* * *
772774 AAGTGTCGATACATTTATAAAAAGTATCGATCCTAGAAACATCGAAACCCATAATTATAATATAA
193 AAGTGTCGATACATTTTTAAAAAGT-TCGATCCCAGAAACATCGAAACCCATAATTATAATGTAA
* * **
772839 TAGGTAATTTTTCAACGTAACCGGTA-AAACTATACCGGTTTTATGAGAGAATAGGTCTACATAA
257 TAGGTAATTTTT-AATGTAACCGATATAAA-TATACCAATTTTATGAGAGAATAGGTCTACATAA
* *
772903 TGTATCGACACTTATAGAATTTGTGTCGATAC-TATTTGTCCAGAAGGAATGCCC-AAAAGGGTG
320 TGTATCGACACTTATAGAATTTGTGTCGATACAT-TTTGTCAAGAAGAAATGCCCAAAAAGGGTG
772966 CACAAATAAAGAGC
384 CACAAATAAAGAGC
* * * * * *
772980 CGATACATTTTTTAAAAGTGTCGATCCCAGAGACATCGAAACCCATAATTATATTGTAATAGATA
1 CGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATA-TGTAATAGGTA
773045 ATTTTGTAATGTAACCGGTATAAATATACTGATTTTATGTGAGAATAGGTCTACATAATGTATAG
65 ATTTTGTAATGTAACCGGTATAAATATACTGATTTTATGTGAGAATAGGTCTACATAATGTATAG
*
773110 ACACATTTGAAATTGGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGAACGCATAA
130 ACAC-TTTGAAATTGGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGAACCCATAA
*
773175 AGTGTCGATACATTTTTAAAAAGTGTCGATCCCAGAGACATCG-AACCCATAATTATAATGTAAT
194 AGTGTCGATACATTTTTAAAAAGT-TCGATCCCAGAAACATCGAAACCCATAATTATAATGTAAT
* *
773239 AGGTAATTTTGTAATGTAACCGATATAAATATACCAATTTTATGTGAGAATATGTCTACATAATG
258 AGGTAATTTT-TAATGTAACCGATATAAATATACCAATTTTATGAGAGAATAGGTCTACATAATG
* ** * *
773304 TATCGACA-TTTTTTAATTATGTGTCGATACATTTTGTCAAGAATAAATGCCCAAAAAATGGTGC
322 TATCGACACTTATAGAATT-TGTGTCGATACATTTTGTCAAGAAGAAATGCCC-AAAAAGGGTGC
** * *
773368 ACGCATAAAGTGT
385 ACAAATAAAGAGC
* * *
773381 CGATACATTTATAAAAAGTATCGATCCCATAAACATCGAAACCCATGATTATAAGTAATAGGTAA
1 CGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATATGTAATAGGTAA
* * * *
773446 TTTT-TCAATGTAACCGGTATAAATATA-TCGGTTTTATGCGAGAATAGGTCTAGAAAATGTA-A
66 TTTTGT-AATGTAACCGGTATAAATATACT-GATTTTATGTGAGAATAGGTCTACATAATGTATA
* * * ** * * *
773508 TGACACTTATGGAATTTGTTTCGATACTTTTTGTTTAGAAGGAATG-CCAAAAGGGTGCACCCAT
129 -GACACTT-TGAAATTGGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGAACCCAT
* * * * *
773572 TAAGTGTCGATACATTTTT-AAAA----GATCCCATAAATATTGAAACCAATAATTATAATGTAA
192 AAAGTGTCGATACATTTTTAAAAAGTTCGATCCCAGAAACATCGAAACCCATAATTATAATGTAA
** **** * *
773632 TAGGTAAATTTCCAATGTAACCGATATAAATATATTGGTTTTATGAGAAAATAGAT-TAGCATAA
257 TAGGT-AATTTTTAATGTAACCGATATAAATATACCAATTTTATGAGAGAATAGGTCTA-CATAA
* * *
773696 AGTATCGACAATTGTTA-AATTTGTGTCGATACCATTTT
320 TGTATCGACACTT-ATAGAATTTGTGTCGATA-CATTTT
773734 AAAAATTGCG
Statistics
Matches: 656, Mismatches: 78, Indels: 43
0.84 0.10 0.06
Matches are distributed among these distances:
393 14 0.02
394 83 0.13
395 17 0.03
396 2 0.00
397 1 0.00
398 125 0.19
399 186 0.28
400 163 0.25
401 65 0.10
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.33
Consensus pattern (397 bp):
CGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATATGTAATAGGTAA
TTTTGTAATGTAACCGGTATAAATATACTGATTTTATGTGAGAATAGGTCTACATAATGTATAGA
CACTTTGAAATTGGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGAACCCATAAAG
TGTCGATACATTTTTAAAAAGTTCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATAGG
TAATTTTTAATGTAACCGATATAAATATACCAATTTTATGAGAGAATAGGTCTACATAATGTATC
GACACTTATAGAATTTGTGTCGATACATTTTGTCAAGAAGAAATGCCCAAAAAGGGTGCACAAAT
AAAGAGC
Found at i:773330 original size:199 final size:200
Alignment explanation
Indices: 772578--773727 Score: 1368
Period size: 200 Copynumber: 5.8 Consensus size: 200
772568 ATAAGCAGAT
* * * *
772578 GTGTCGATACATTTATAAAAAGTATCGATCACAAAAATATCGAAACTCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
* * * *
772643 GGTAATTTTGTAATATAACTGGTATAAATATACCAGTTTTATGTGAAAATAGGTCTACATAATGT
66 GGTAATTTTGTAATGTAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTACATAATGT
* *
772708 ATCGAC-CTTTTGAAA-TTGTTGTCGATACTTTTTGTCCAGAATGAAT-CCCAAAATGGTGAACT
131 ATCGACACTTTTGAAATTTG-TGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGCACG
772770 CATAAA
195 CATAAA
* *
772776 GTGTCGATACATTTATAAAAAGTATCGATCCTAGAAACATCGAAACCCATAATTATAATATAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
* *
772841 GGTAATTTT-TCAACGTAACCGGTA-AAACTATACCGGTTTTATGAGAGAATAGGTCTACATAAT
66 GGTAATTTTGT-AATGTAACCGGTATAAA-TATACCGGTTTTATGTGAGAATAGGTCTACATAAT
* * * *
772904 GTATCGACACTTAT-AGAATTTGTGTCGATACTATTTGTCCAGAAGGAATGCCCAAAAGGGTGCA
129 GTATCGACACTTTTGA-AATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGCA
**
772968 CAAATAAA
193 CGCATAAA
* * * * * * *
772976 GAGCCGATACATTTTTTAAAAGTGTCGATCCCAGAGACATCGAAACCCATAATTATATTGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
* * *
773041 GATAATTTTGTAATGTAACCGGTATAAATATACTGATTTTATGTGAGAATAGGTCTACATAATGT
66 GGTAATTTTGTAATGTAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTACATAATGT
* * * *
773106 ATAGACACATTTGAAATTGGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGAACGC
131 ATCGACACTTTTGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGCACGC
773171 ATAAA
196 ATAAA
* * *
773176 GTGTCGATACATTTTTAAAAAGTGTCGATCCCAGAGACATCG-AACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
* ** *
773240 GGTAATTTTGTAATGTAACCGATATAAATATACCAATTTTATGTGAGAATATGTCTACATAATGT
66 GGTAATTTTGTAATGTAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTACATAATGT
** * * *
773305 ATCGACA-TTTTTTAATTATGTGTCGATACATTTTGTCAAGAATAAATGCCCAAAAAATGGTGCA
131 ATCGACACTTTTGAAATT-TGTGTCGATACTTTTTGTCCAGAATGAATGCCC--AAAATGGTGCA
773369 CGCATAAA
193 CGCATAAA
* *
773377 GTGTCGATACATTTATAAAAAGTATCGATCCCATAAACATCGAAACCCATGATTATAA-GTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
* * * *
773441 GGTAATTTT-TCAATGTAACCGGTATAAATATATCGGTTTTATGCGAGAATAGGTCTAGAAAATG
66 GGTAATTTTGT-AATGTAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTACATAATG
* * * ** * *
773505 TAAT-GACACTTATGGAATTTGTTTCGATACTTTTTGTTTAGAAGGAATG-CCAAAAGGGTGCAC
130 T-ATCGACACTTTTGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGCAC
* *
773568 CCATTAA
194 GCATAAA
* * * * *
773575 GTGTCGATACATTT-T-TAAA--A--GATCCCATAAATATTGAAACCAATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
* ** * ** * * * *
773634 GGTAAATTTCCAATGTAACCGATATAAATATATTGGTTTTATGAGAAAATAGAT-TAGCATAAAG
66 GGTAATTTTGTAATGTAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTA-CATAATG
*
773698 TATCGACAATTGTT-AAATTTGTGTCGATAC
130 TATCGACACTT-TTGAAATTTGTGTCGATAC
773728 CATTTTAAAA
Statistics
Matches: 826, Mismatches: 105, Indels: 47
0.84 0.11 0.05
Matches are distributed among these distances:
192 32 0.04
193 77 0.09
194 2 0.00
196 3 0.00
197 5 0.01
198 156 0.19
199 147 0.18
200 231 0.28
201 150 0.18
202 23 0.03
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (200 bp):
GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
GGTAATTTTGTAATGTAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTACATAATGT
ATCGACACTTTTGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGCACGC
ATAAA
Found at i:775005 original size:24 final size:24
Alignment explanation
Indices: 774959--775006 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
774949 TATGTGATTG
* *
774959 GAGTTTGAATTTCAATTTCAATTT
1 GAGTTTGAATTTCAATATAAATTT
*
774983 GAGTTTGAGTTTCAATATAAATTT
1 GAGTTTGAATTTCAATATAAATTT
775007 CAGCTCCACT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.31, C:0.06, G:0.15, T:0.48
Consensus pattern (24 bp):
GAGTTTGAATTTCAATATAAATTT
Found at i:775007 original size:60 final size:60
Alignment explanation
Indices: 774893--775008 Score: 146
Period size: 60 Copynumber: 1.9 Consensus size: 60
774883 TTATGTAATT
* **
774893 TGATTGGAGTTTGAATTTCCATGTTCAATTTAACATTGCATTTCAAATTCATTTCATATG
1 TGATTGGAGTTTGAATTTCAATGTTCAATTTAACATTGCATTTCAAATAAATTTCATATG
* **
774953 TGATTGGAGTTTGAATTTCAAT-TTCAATTTGAGTTTG-AGTTTCAATATAAATTTCA
1 TGATTGGAGTTTGAATTTCAATGTTCAATTTAACATTGCA-TTTCAA-ATAAATTTCA
775009 GCTCCACTAT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
58 1 0.02
59 18 0.38
60 29 0.60
ACGTcount: A:0.29, C:0.10, G:0.15, T:0.46
Consensus pattern (60 bp):
TGATTGGAGTTTGAATTTCAATGTTCAATTTAACATTGCATTTCAAATAAATTTCATATG
Found at i:776043 original size:198 final size:197
Alignment explanation
Indices: 775311--776277 Score: 1140
Period size: 198 Copynumber: 4.9 Consensus size: 197
775301 TAAAGTTTCC
** * * *
775311 CATAAAGTGTTTATACATGTTTAAAAAGTATCGATCCCAAAAACATC-AAAATCGAAAAGTATAA
1 CATAAAGTGTCGATACAT-TTT-AAAAGTATCGATCCCAAAAACATCGAAACT-GATAATTATAA
* * * * *
775375 TGTAATAGGTAAATTTACAATGTAACTGGTATAAATATACCGATTTTTTGAGAAAATAGAT-ATA
63 TGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCA-A
* *
775439 CATAATGTATCGACACTTATGGAATTTGTGTCGATACTTTTTGTCCAAAATGAATGCCAAACATG
127 CATAATGTATCGACACTTATAGAATTTGTGTCGATACTTTTTGTCCAAAATGAATGCCAAA-AGG
*
775504 GTGCATG
191 GTGCACG
* * * **
775511 CATACAA-TATCGATATATTTTTAAAAAGTATCGATCCCAAAAATATCGAAACCCATAATTATAA
1 CATA-AAGTGTCGATACA-TTTT-AAAAGTATCGATCCCAAAAACATCGAAACTGATAATTATAA
* * * * * * * *
775575 TGTAATAGGCAATTTTGTC-ATATAACTGGTATAAATATACAGGTTTTATGTGAGAATAGGTCTA
63 TGTAATAGGTAAATTT-ACAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCAA
* * *
775639 CATAATGTGTCGACACATT-T-GAATTTTGTGTCGATACTTTTTGTCTAGAATGAATGCCCAAAA
127 CATAATGTATCGACAC-TTATAGAA-TTTGTGTCGATACTTTTTGTCCAAAATGAATG-CCAAAA
* *
775702 TGGTGAACG
189 GGGTGCACG
*
775711 CATAAAGTGTCGATACATTTATAAAAAAGTATCGATCCCAAAAACATCGAAACTCATAATTATAA
1 CATAAAGTGTCGATACATTT-T--AAAAGTATCGATCCCAAAAACATCGAAACTGATAATTATAA
* * ** *
775776 TATAATAGGTAAATTTACAATGTAACCGGTATAACTATACCTATTTTATGAGAGAATAGGTCTAC
63 TGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCAAC
* *
775841 ATAATGTATCGACACTTATAGAATTTGTGTCGATACTTTTTGTCTAAAATGAATGTCAAAAGGGT
128 ATAATGTATCGACACTTATAGAATTTGTGTCGATACTTTTTGTCCAAAATGAATGCCAAAAGGG-
775906 TGCACG
192 TGCACG
* * * *
775912 CATAAAGTGTCGATACATTTTTAAAGTATCGATCTCAAAAACATTGAAACTGATTATTATAATGT
1 CATAAAGTGTCGATACATTTTAAAAGTATCGATCCCAAAAACATCGAAACTGATAATTATAATGT
* * * *
775977 AATAGGTAAATTTACAATGTAACCGGTATAAATTTACTGGTTTTATGAGAAAATAGGTGAACATA
66 AATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCAACATA
* * * *
776042 ATGTATCGACACGTTTTAG-ATTTGTGTCGATACATTTTGTCCAGAATGAATGCCAAACGGGGTG
131 ATGTATCGACAC-TTATAGAATTTGTGTCGATACTTTTTGTCCAAAATGAATGCCAAA-AGGGTG
*
776106 CAGG
194 CACG
* * * * * * *
776110 CAAAAAGTGTCGATACATTTGAAATTGTATCGATCCTAAAAAGATCGAAACCGATTATTATAATG
1 CATAAAGTGTCGATACATTTTAAA-AGTATCGATCCCAAAAACATCGAAACTGATAATTATAATG
** *
776175 TAATAGGTAAATTTACAATGTAACCAATATAAATATACCGGTTTTATGAGAGAATATGTCAACAT
65 TAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCAACAT
*
776240 AATGTATCGACACTTTTA-AATTTGTGTCGATACTTTTT
130 AATGTATCGACACTTATAGAATTTGTGTCGATACTTTTT
776278 AAATAACGCG
Statistics
Matches: 664, Mismatches: 84, Indels: 40
0.84 0.11 0.05
Matches are distributed among these distances:
198 190 0.29
199 121 0.18
200 173 0.26
201 177 0.27
202 3 0.00
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (197 bp):
CATAAAGTGTCGATACATTTTAAAAGTATCGATCCCAAAAACATCGAAACTGATAATTATAATGT
AATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCAACATA
ATGTATCGACACTTATAGAATTTGTGTCGATACTTTTTGTCCAAAATGAATGCCAAAAGGGTGCA
CG
Found at i:777798 original size:19 final size:19
Alignment explanation
Indices: 777776--777824 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
777766 AATGTAGGGT
777776 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
** *
777795 TAATTTTACATACGATTTA
1 TAATTTTGTATAAGATTTA
777814 TAATTTTGTAT
1 TAATTTTGTAT
777825 GTGAATGTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.35, C:0.04, G:0.08, T:0.53
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:780701 original size:21 final size:21
Alignment explanation
Indices: 780677--780729 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
780667 GTGCACGCAT
*
780677 AAAGTGTCGATACATTTATTA
1 AAAGTATCGATACATTTATTA
*
780698 AAAGTATCGATATATTTATTA
1 AAAGTATCGATACATTTATTA
780719 AAAGTATCGAT
1 AAAGTATCGAT
780730 CTCACAAACA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.42, C:0.08, G:0.13, T:0.38
Consensus pattern (21 bp):
AAAGTATCGATACATTTATTA
Found at i:781067 original size:23 final size:23
Alignment explanation
Indices: 781011--781067 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
781001 TTACTTAGAA
*
781011 AATATGTCAATATAAGCGCTACCT
1 AATATGT-TATATAAGCGCTACCT
* **
781035 ATTACATTATATAAGCGCTACCT
1 AATATGTTATATAAGCGCTACCT
781058 AATATGTTAT
1 AATATGTTAT
781068 TGTACTTGAT
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
23 22 0.85
24 4 0.15
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.35
Consensus pattern (23 bp):
AATATGTTATATAAGCGCTACCT
Found at i:781120 original size:87 final size:87
Alignment explanation
Indices: 781020--781182 Score: 317
Period size: 87 Copynumber: 1.9 Consensus size: 87
781010 AAATATGTCA
*
781020 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAACGCTACCTAATATGTTATTGTACTTGATAATATTT
781085 CCGGTTAAATGCCTATTTTATT
66 CCGGTTAAATGCCTATTTTATT
781107 ATATAAGCGCTACCTATTACATTATATAAACGCTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAACGCTACCTAATATGTTATTGTACTTGATAATATTT
781172 CCGGTTAAATG
66 CCGGTTAAATG
781183 ATATAACATA
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
87 75 1.00
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.40
Consensus pattern (87 bp):
ATATAAGCGCTACCTATTACATTATATAAACGCTACCTAATATGTTATTGTACTTGATAATATTT
CCGGTTAAATGCCTATTTTATT
Found at i:781154 original size:23 final size:23
Alignment explanation
Indices: 781104--781148 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
781094 TGCCTATTTT
* *
781104 ATTATATAAGCGCTACCTATTAC
1 ATTATATAAACGCTACCTAATAC
781127 ATTATATAAACGCTACCTAATA
1 ATTATATAAACGCTACCTAATA
781149 TGTTATTGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.40, C:0.20, G:0.07, T:0.33
Consensus pattern (23 bp):
ATTATATAAACGCTACCTAATAC
Found at i:792657 original size:111 final size:111
Alignment explanation
Indices: 792519--792856 Score: 631
Period size: 111 Copynumber: 3.0 Consensus size: 111
792509 TTACAAAAAA
*
792519 TAATTCTTAATATAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTAA
1 TAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTAA
792584 ATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATATT
66 ATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATATT
792630 TAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTAA
1 TAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTAA
*
792695 ATTAAAACGTTAAAATGTTACCGTATTAGCAAAGTGTCGAGATATT
66 ATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATATT
792741 TAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTAA
1 TAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTAA
* * *
792806 ATTAAATCGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATATA
66 ATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATATT
792852 TAATT
1 TAATT
792857 TTTATCCGAG
Statistics
Matches: 221, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
111 221 1.00
ACGTcount: A:0.45, C:0.11, G:0.08, T:0.37
Consensus pattern (111 bp):
TAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTAA
ATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATATT
Found at i:792955 original size:17 final size:18
Alignment explanation
Indices: 792912--792952 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
792902 GAATTATATT
792912 AGTAAAATA-TTAAATAA
1 AGTAAAATACTTAAATAA
792929 AGTAAAATACTTAAATAA
1 AGTAAAATACTTAAATAA
*
792947 ATTAAA
1 AGTAAA
792953 TACATAATAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.29
Consensus pattern (18 bp):
AGTAAAATACTTAAATAA
Found at i:793006 original size:12 final size:10
Alignment explanation
Indices: 792992--793032 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
792982 ACATTAAAAA
*
792992 GAGAGTATTT
1 GAGAGAATTT
793002 GAGAGAAATTT
1 GAGAG-AATTT
793013 -AGAGAATTT
1 GAGAGAATTT
793022 GAGAGAATTT
1 GAGAGAATTT
793032 G
1 G
793033 GTGTGATAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 5 0.18
10 19 0.68
11 4 0.14
ACGTcount: A:0.39, C:0.00, G:0.29, T:0.32
Consensus pattern (10 bp):
GAGAGAATTT
Found at i:793209 original size:50 final size:48
Alignment explanation
Indices: 793155--793262 Score: 144
Period size: 50 Copynumber: 2.2 Consensus size: 48
793145 AGATACCCAG
* * *
793155 GTATAGCGTGGATCAAGGGGCGCGCTATACTCACGTGGCGCCAAATCATC
1 GTATAGCG-GGA-CAAGGGGCACGCTATACCCACGTGGCGCCAAATCAGC
*
793205 GTATATCGCGGGACAGGGGGCACGCTATACCCACGTGGCGCCAAATCAGC
1 GTATA--GCGGGACAAGGGGCACGCTATACCCACGTGGCGCCAAATCAGC
793255 GTATAGCG
1 GTATAGCG
793263 CGGTTCAGTG
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
48 3 0.06
50 43 0.83
51 3 0.06
52 3 0.06
ACGTcount: A:0.24, C:0.27, G:0.31, T:0.18
Consensus pattern (48 bp):
GTATAGCGGGACAAGGGGCACGCTATACCCACGTGGCGCCAAATCAGC
Found at i:793265 original size:50 final size:50
Alignment explanation
Indices: 793171--793265 Score: 154
Period size: 50 Copynumber: 1.9 Consensus size: 50
793161 CGTGGATCAA
* * * *
793171 GGGGCGCGCTATACTCACGTGGCGCCAAATCATCGTATATCGCGGGACAG
1 GGGGCACGCTATACCCACGTGGCGCCAAATCAGCGTATAGCGCGGGACAG
793221 GGGGCACGCTATACCCACGTGGCGCCAAATCAGCGTATAGCGCGG
1 GGGGCACGCTATACCCACGTGGCGCCAAATCAGCGTATAGCGCGG
793266 TTCAGTGGGC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 41 1.00
ACGTcount: A:0.22, C:0.29, G:0.33, T:0.16
Consensus pattern (50 bp):
GGGGCACGCTATACCCACGTGGCGCCAAATCAGCGTATAGCGCGGGACAG
Found at i:797983 original size:43 final size:43
Alignment explanation
Indices: 797935--798034 Score: 116
Period size: 42 Copynumber: 2.3 Consensus size: 43
797925 AAAAATTACA
797935 TAATACATCTTACAGTCTCGGCCAAAAGT-ATAGAGAAAATCAG-
1 TAATACATCTTACAGTCTCGGCC-AAAGTGA-AGAGAAAATCAGC
* * * * *
797978 TAATACATCTAACAGTCTTGGTCAATGTGAAGCGAAAATCAGC
1 TAATACATCTTACAGTCTCGGCCAAAGTGAAGAGAAAATCAGC
798021 T-ATACATCTTACAG
1 TAATACATCTTACAG
798035 GCCAATGTAT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
42 27 0.55
43 22 0.45
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.26
Consensus pattern (43 bp):
TAATACATCTTACAGTCTCGGCCAAAGTGAAGAGAAAATCAGC
Found at i:802936 original size:36 final size:37
Alignment explanation
Indices: 802878--802957 Score: 126
Period size: 36 Copynumber: 2.2 Consensus size: 37
802868 TTTTGTTTGG
802878 GTCGGGTCATGTTTTTTAAGTGTAATATTCGGGTCGA
1 GTCGGGTCATGTTTTTTAAGTGTAATATTCGGGTCGA
* * *
802915 GTCGGGTCGT-TTTTTTAAGTGTGATATTCGGGTCGG
1 GTCGGGTCATGTTTTTTAAGTGTAATATTCGGGTCGA
802951 GTCGGGT
1 GTCGGGT
802958 TCGGGTTTAG
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
36 31 0.77
37 9 0.22
ACGTcount: A:0.14, C:0.11, G:0.35, T:0.40
Consensus pattern (37 bp):
GTCGGGTCATGTTTTTTAAGTGTAATATTCGGGTCGA
Found at i:803208 original size:179 final size:181
Alignment explanation
Indices: 802949--803305 Score: 569
Period size: 179 Copynumber: 2.0 Consensus size: 181
802939 TATTCGGGTC
** * *
802949 GGGTCGGGTTCGGGTTTAGGGTGAAAAAAACCAGACTGACCCGAAAATATATATAATTCGGGTTG
1 GGGTCGGGTTCGGGTTTAGGGTGAAAAAAACCAGACCAACCCGAAAATATATATAATTCGGATCG
* * *
803014 GGTCGGATTAAGTCACTATTTTTATTAATTAAAAATAATTTTTTTATTATTTCGGGTC-G-G-GT
66 GATCGAATTAAGTCACTATTTTTATTAAATAAAAATAA--TTTTTATTATTTCGGGTCGGCGAGT
803076 CGGATTTCTAATTCATATATTCGGGTCGGGTCGGATGAAACTTTATTTTTTTT
129 CGGATTTCTAATTCATATATTCGGGTCGGGTCGGATGAAACTTTATTTTTTTT
* *
803129 GGGTCGGGTTCGGGTTTAGGGTG-AAAAAACCGGACCAACCTGAAAATATATATAATTCGGATCG
1 GGGTCGGGTTCGGGTTTAGGGTGAAAAAAACCAGACCAACCCGAAAATATATATAATTCGGATCG
*
803193 GATCGAATTAAGTCACTGTTTTTATTAAATAAAAATAATTTTTATTATTTCGGGTCGGTCGAGTC
66 GATCGAATTAAGTCACTATTTTTATTAAATAAAAATAATTTTTATTATTTCGGGTCGG-CGAGTC
803258 GGATTTCTAATTCATATATTCGGGTCGGGTCGGATGAAACTTTATTTT
130 GGATTTCTAATTCATATATTCGGGTCGGGTCGGATGAAACTTTATTTT
803306 GTTCGGGTTG
Statistics
Matches: 163, Mismatches: 10, Indels: 7
0.91 0.06 0.04
Matches are distributed among these distances:
177 18 0.11
178 1 0.01
179 69 0.42
180 24 0.15
181 51 0.31
ACGTcount: A:0.28, C:0.12, G:0.23, T:0.37
Consensus pattern (181 bp):
GGGTCGGGTTCGGGTTTAGGGTGAAAAAAACCAGACCAACCCGAAAATATATATAATTCGGATCG
GATCGAATTAAGTCACTATTTTTATTAAATAAAAATAATTTTTATTATTTCGGGTCGGCGAGTCG
GATTTCTAATTCATATATTCGGGTCGGGTCGGATGAAACTTTATTTTTTTT
Found at i:803861 original size:15 final size:15
Alignment explanation
Indices: 803841--803873 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
803831 TAGTGTGACT
803841 AAAATATAAATA-TTA
1 AAAATA-AAATACTTA
803856 AAAATAAAATACTTA
1 AAAATAAAATACTTA
803871 AAA
1 AAA
803874 CAAAATAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (15 bp):
AAAATAAAATACTTA
Found at i:804605 original size:2 final size:2
Alignment explanation
Indices: 804588--804640 Score: 88
Period size: 2 Copynumber: 26.5 Consensus size: 2
804578 AATAAAAATG
* *
804588 TA TA TC TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
804630 TA TA TA TA TA T
1 TA TA TA TA TA T
804641 TTTCCATACC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:805226 original size:3 final size:3
Alignment explanation
Indices: 805218--805251 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
805208 TAAAGACACT
*
805218 TAA TAA TAA TAA TAA TAA TAA TAA T-T TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
805252 TTCTTTAACC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 1 0.04
3 27 0.96
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:806130 original size:39 final size:39
Alignment explanation
Indices: 806087--806171 Score: 118
Period size: 39 Copynumber: 2.2 Consensus size: 39
806077 TCAAAATCTA
**
806087 TATAAA-TAGTTATATTCATAACCCAGTTAAACATTTCAG
1 TATAAACT-GTTATATTCATAACCCAACTAAACATTTCAG
* *
806126 TATAAACTGTTATATTCATAACTCAACTAAACATTTTAG
1 TATAAACTGTTATATTCATAACCCAACTAAACATTTCAG
806165 TATAAAC
1 TATAAAC
806172 ATTTCAGTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
39 40 0.98
40 1 0.02
ACGTcount: A:0.42, C:0.15, G:0.06, T:0.36
Consensus pattern (39 bp):
TATAAACTGTTATATTCATAACCCAACTAAACATTTCAG
Found at i:806172 original size:14 final size:14
Alignment explanation
Indices: 806153--806182 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
806143 ATAACTCAAC
*
806153 TAAACATTTTAGTA
1 TAAACATTTCAGTA
806167 TAAACATTTCAGTA
1 TAAACATTTCAGTA
806181 TA
1 TA
806183 TACAATTATA
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:0.43, C:0.10, G:0.07, T:0.40
Consensus pattern (14 bp):
TAAACATTTCAGTA
Found at i:806177 original size:53 final size:53
Alignment explanation
Indices: 806114--806233 Score: 195
Period size: 53 Copynumber: 2.3 Consensus size: 53
806104 ATAACCCAGT
** *
806114 TAAACATTTCAGTATAAACTGTTATATTCATAACTCAACTAAACATTTTAGTA
1 TAAACATTTCAGTATAAACAATTATATTCATAACTCAACTAAACATTTTAATA
* *
806167 TAAACATTTCAGTATATACAATTATATTCGTAACTCAACTAAACATTTTAATA
1 TAAACATTTCAGTATAAACAATTATATTCATAACTCAACTAAACATTTTAATA
806220 TAAACATTTCAGTA
1 TAAACATTTCAGTA
806234 AAATTTCACT
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
53 62 1.00
ACGTcount: A:0.42, C:0.15, G:0.05, T:0.38
Consensus pattern (53 bp):
TAAACATTTCAGTATAAACAATTATATTCATAACTCAACTAAACATTTTAATA
Found at i:807081 original size:3 final size:3
Alignment explanation
Indices: 807073--807112 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
807063 TAAACACGAT
*
807073 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-T TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
807113 TTCTTTAACC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
2 1 0.03
3 33 0.97
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:808456 original size:15 final size:14
Alignment explanation
Indices: 808433--808496 Score: 62
Period size: 13 Copynumber: 4.6 Consensus size: 14
808423 TCTCAAACCC
*
808433 TCATTTTTCTCTTT
1 TCATTTTTTTCTTT
*
808447 TCA-TTTTTTCATT
1 TCATTTTTTTCTTT
*
808460 TC-TTTTTTT-TTCA
1 TCATTTTTTTCTT-T
808473 TCATTTTTTTCTTTT
1 TCATTTTTTTC-TTT
808488 TCATTTTTT
1 TCATTTTTT
808497 CATTTTTTTC
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
12 1 0.03
13 18 0.45
14 10 0.25
15 9 0.22
16 2 0.05
ACGTcount: A:0.09, C:0.16, G:0.00, T:0.75
Consensus pattern (14 bp):
TCATTTTTTTCTTT
Found at i:808465 original size:18 final size:16
Alignment explanation
Indices: 808444--808530 Score: 63
Period size: 16 Copynumber: 5.2 Consensus size: 16
808434 CATTTTTCTC
808444 TTTTCATTTTTTCATTT
1 TTTTC-TTTTTTCATTT
808461 CTTTT-TTTTTCATCATTT
1 -TTTTCTTTTT--TCATTT
808479 TTTTC-TTTTTCA-TT
1 TTTTCTTTTTTCATTT
*
808493 TTTTCATTTTTTTCATCT
1 TTTTC--TTTTTTCATTT
* * *
808511 TTTTATTTGTTCCTTT
1 TTTTCTTTTTTCATTT
808527 TTTT
1 TTTT
808531 TCTTCAAGCA
Statistics
Matches: 57, Mismatches: 5, Indels: 16
0.73 0.06 0.21
Matches are distributed among these distances:
14 7 0.12
15 3 0.05
16 17 0.30
17 15 0.26
18 15 0.26
ACGTcount: A:0.09, C:0.14, G:0.01, T:0.76
Consensus pattern (16 bp):
TTTTCTTTTTTCATTT
Found at i:808483 original size:35 final size:33
Alignment explanation
Indices: 808451--808514 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
808441 CTCTTTTCAT
808451 TTTTTCATTTCTT-TTTTTTTCATCATTTTTTTC
1 TTTTTCATTTCTTATTTTTTTCATC-TTTTTTTC
*
808484 TTTTTCATTTTTTCATTTTTTTCATCTTTTT
1 TTTTTCATTTCTT-ATTTTTTTCATCTTTTT
808515 ATTTGTTCCT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 12 0.43
34 5 0.18
35 11 0.39
ACGTcount: A:0.09, C:0.14, G:0.00, T:0.77
Consensus pattern (33 bp):
TTTTTCATTTCTTATTTTTTTCATCTTTTTTTC
Found at i:808488 original size:23 final size:21
Alignment explanation
Indices: 808433--808506 Score: 64
Period size: 23 Copynumber: 3.5 Consensus size: 21
808423 TCTCAAACCC
*
808433 TCATTTTTCTCTTTTCATTTTT
1 TCATTTTTTTCTTTT-ATTTTT
* **
808455 TCA-TTTCTT-TTTT-TTTCA
1 TCATTTTTTTCTTTTATTTTT
808473 TCATTTTTTTCTTTTTCATTTTT
1 TCATTTTTTTC-TTTT-ATTTTT
808496 TCATTTTTTTC
1 TCATTTTTTTC
808507 ATCTTTTTAT
Statistics
Matches: 40, Mismatches: 7, Indels: 9
0.71 0.12 0.16
Matches are distributed among these distances:
18 6 0.15
19 5 0.12
20 4 0.10
21 8 0.20
22 3 0.08
23 14 0.35
ACGTcount: A:0.09, C:0.16, G:0.00, T:0.74
Consensus pattern (21 bp):
TCATTTTTTTCTTTTATTTTT
Found at i:808502 original size:15 final size:15
Alignment explanation
Indices: 808433--808503 Score: 56
Period size: 15 Copynumber: 4.5 Consensus size: 15
808423 TCTCAAACCC
*
808433 TCATTTTTC-TCTTT
1 TCATTTTTCATTTTT
808447 TCATTTTTTCATTTCTT
1 TCA-TTTTTCATTT-TT
**
808464 TTTTTTTCATCATTTTTT
1 TCATTTT--TCA-TTTTT
808482 TC-TTTTTCATTTTT
1 TCATTTTTCATTTTT
808496 TCATTTTT
1 TCATTTTT
808504 TTCATCTTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 13
0.73 0.06 0.21
Matches are distributed among these distances:
14 10 0.22
15 14 0.30
16 6 0.13
17 7 0.15
18 6 0.13
19 3 0.07
ACGTcount: A:0.10, C:0.15, G:0.00, T:0.75
Consensus pattern (15 bp):
TCATTTTTCATTTTT
Found at i:808513 original size:25 final size:23
Alignment explanation
Indices: 808436--808530 Score: 76
Period size: 25 Copynumber: 4.2 Consensus size: 23
808426 CAAACCCTCA
*
808436 TTTTTCTCTTTTCATTTTTTCATT
1 TTTTTCT-TTTTCATTTGTTCATT
808460 TCTTTT-TTTTTCA-----TCATT
1 T-TTTTCTTTTTCATTTGTTCATT
*
808478 TTTTTCTTTTTCATTTTTTCATT
1 TTTTTCTTTTTCATTTGTTCATT
* *
808501 TTTTTCATCTTTTTATTTGTTCCTT
1 TTTTTC-T-TTTTCATTTGTTCATT
808526 TTTTT
1 TTTTT
808531 TCTTCAAGCA
Statistics
Matches: 59, Mismatches: 3, Indels: 17
0.75 0.04 0.22
Matches are distributed among these distances:
17 4 0.07
18 13 0.22
23 17 0.29
24 3 0.05
25 22 0.37
ACGTcount: A:0.08, C:0.15, G:0.01, T:0.76
Consensus pattern (23 bp):
TTTTTCTTTTTCATTTGTTCATT
Found at i:808532 original size:26 final size:26
Alignment explanation
Indices: 808482--808532 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
808472 ATCATTTTTT
*
808482 TCTTTTTCATTTTTTCATTTTTTTCA
1 TCTTTTTCATTTTTCCATTTTTTTCA
*
808508 TCTTTTT-ATTTGTTCCTTTTTTTTC
1 TCTTTTTCATTT-TTCCATTTTTTTC
808533 TTCAAGCATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 4 0.18
26 18 0.82
ACGTcount: A:0.08, C:0.16, G:0.02, T:0.75
Consensus pattern (26 bp):
TCTTTTTCATTTTTCCATTTTTTTCA
Found at i:820703 original size:15 final size:15
Alignment explanation
Indices: 820683--820715 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
820673 TAGTGTGACT
820683 AAAATATAAATA-TTA
1 AAAATA-AAATACTTA
820698 AAAATAAAATACTTA
1 AAAATAAAATACTTA
820713 AAA
1 AAA
820716 CAAAATAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (15 bp):
AAAATAAAATACTTA
Found at i:821447 original size:2 final size:2
Alignment explanation
Indices: 821430--821512 Score: 148
Period size: 2 Copynumber: 41.5 Consensus size: 2
821420 AATAAAAATG
* *
821430 TA TA TC TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
821472 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
821513 TCCATACCCT
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 77 1.00
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (2 bp):
TA
Found at i:822096 original size:3 final size:3
Alignment explanation
Indices: 822088--822136 Score: 82
Period size: 3 Copynumber: 16.7 Consensus size: 3
822078 TAAACACACT
*
822088 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-T TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
822135 TA
1 TA
822137 TTCTTTAACC
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
2 1 0.02
3 42 0.98
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:823017 original size:39 final size:39
Alignment explanation
Indices: 822974--823058 Score: 118
Period size: 39 Copynumber: 2.2 Consensus size: 39
822964 TCAAAATCTA
**
822974 TATAAA-TAGTTATATTCATAACCCAGTTAAACATTTCAG
1 TATAAACT-GTTATATTCATAACCCAACTAAACATTTCAG
* *
823013 TATAAACTGTTATATTCATAACTCAACTAAACATTTTAG
1 TATAAACTGTTATATTCATAACCCAACTAAACATTTCAG
823052 TATAAAC
1 TATAAAC
823059 ATTTCAGTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
39 40 0.98
40 1 0.02
ACGTcount: A:0.42, C:0.15, G:0.06, T:0.36
Consensus pattern (39 bp):
TATAAACTGTTATATTCATAACCCAACTAAACATTTCAG
Found at i:823059 original size:14 final size:14
Alignment explanation
Indices: 823040--823069 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
823030 ATAACTCAAC
*
823040 TAAACATTTTAGTA
1 TAAACATTTCAGTA
823054 TAAACATTTCAGTA
1 TAAACATTTCAGTA
823068 TA
1 TA
823070 TACAATTATA
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:0.43, C:0.10, G:0.07, T:0.40
Consensus pattern (14 bp):
TAAACATTTCAGTA
Found at i:823064 original size:53 final size:53
Alignment explanation
Indices: 823001--823120 Score: 186
Period size: 53 Copynumber: 2.3 Consensus size: 53
822991 ATAACCCAGT
** *
823001 TAAACATTTCAGTATAAACTGTTATATTCATAACTCAACTAAACATTTTAGTA
1 TAAACATTTCAGTATAAACAATTATATTCATAACTCAACTAAACATTTTAATA
* * *
823054 TAAACATTTCAGTATATACAATTATATTCGTAACTCAATTAAACATTTTAATA
1 TAAACATTTCAGTATAAACAATTATATTCATAACTCAACTAAACATTTTAATA
823107 TAAACATTTCAGTA
1 TAAACATTTCAGTA
823121 AAATTTCACT
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
53 61 1.00
ACGTcount: A:0.42, C:0.14, G:0.05, T:0.38
Consensus pattern (53 bp):
TAAACATTTCAGTATAAACAATTATATTCATAACTCAACTAAACATTTTAATA
Found at i:823460 original size:146 final size:145
Alignment explanation
Indices: 823169--823590 Score: 497
Period size: 147 Copynumber: 2.9 Consensus size: 145
823159 AACATTTAAG
* * * * * *
823169 TATTCATAACCCAACTAAACGTTTCAGTATGCCGCAAAAAATACAAATATGCATTTTCAATTAAA
1 TATTCATGACCCAACTAAACATTTTAATATGCCACAAAAAATACCAATATGCATTTTCAATTAAA
* * * * ** * * *
823234 ACACAAAAATTACTCGCATTCAATATTTCTCCCCCAGTTTTCTGATTGGTATAACGACCAATACT
66 ACA-AAAAA-TACTCACATTCAATATTTCTTCACTAGTTTTCAAATTGGCATAAAGACCAATACC
823299 AACAATATAAACACTTA
129 AACAATATAAACACTTA
** *
823316 TATTCAT-AGCTTAACTAAACATTTTAATATGTCACAAAAAATACCAATATGCCA-TTTCAATTA
1 TATTCATGA-CCCAACTAAACATTTTAATATGCCACAAAAAATACCAATATG-CATTTTCAATTA
*
823379 AAACATAAAAATACTCACATTCAATATTTCTTCACTAGTTTTCAAATTGGCATAAAGATCAATAC
64 AAACA-AAAAATACTCACATTCAATATTTCTTCACTAGTTTTCAAATTGGCATAAAGACCAATAC
*
823444 CAACAGTATAAACACTTA
128 CAACAATATAAACACTTA
** * *
823462 TATTCATGACCCAACTAAATGTTTTAGTATGCCACAAAAAATATCAATATGCATTTTCAATTTAA
1 TATTCATGACCCAACTAAACATTTTAATATGCCACAAAAAATACCAATATGCATTTTCAA-TTAA
* * * ** *
823527 ATACAAAAAATACTCACATTCAATATTTATTCACTAATTTTCATATTGATATAAATACCAATAC
65 A-ACAAAAAATACTCACATTCAATATTTCTTCACTAGTTTTCAAATTGGCATAAAGACCAATAC
823591 TAATCTGTCT
Statistics
Matches: 235, Mismatches: 34, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
145 2 0.01
146 110 0.47
147 118 0.50
148 5 0.02
ACGTcount: A:0.42, C:0.19, G:0.06, T:0.32
Consensus pattern (145 bp):
TATTCATGACCCAACTAAACATTTTAATATGCCACAAAAAATACCAATATGCATTTTCAATTAAA
ACAAAAAATACTCACATTCAATATTTCTTCACTAGTTTTCAAATTGGCATAAAGACCAATACCAA
CAATATAAACACTTA
Found at i:829134 original size:39 final size:41
Alignment explanation
Indices: 829076--829180 Score: 130
Period size: 38 Copynumber: 2.6 Consensus size: 41
829066 ATATATAATA
* *
829076 ATATAGTATAGTTTTTTAAAACATATTTTTAAAA-A-A-AC
1 ATATAATATAGTTTTTTAAAACATATTTTGAAAACATATAC
*
829114 ATATAATATACAG-TTTTTAAAACAT-TTTTGAAAACATATAT
1 ATATAATAT--AGTTTTTTAAAACATATTTTGAAAACATATAC
829155 ATATAATATAGTTTTTTAAAACATAT
1 ATATAATATAGTTTTTTAAAACATAT
829181 AGTATATAGT
Statistics
Matches: 57, Mismatches: 3, Indels: 11
0.80 0.04 0.15
Matches are distributed among these distances:
38 16 0.28
39 15 0.26
40 15 0.26
41 11 0.19
ACGTcount: A:0.47, C:0.06, G:0.05, T:0.43
Consensus pattern (41 bp):
ATATAATATAGTTTTTTAAAACATATTTTGAAAACATATAC
Found at i:829221 original size:34 final size:34
Alignment explanation
Indices: 829178--829343 Score: 93
Period size: 36 Copynumber: 4.6 Consensus size: 34
829168 TTTTAAAACA
* *
829178 TATAGTATATAGTTTTTAAAATAATTTTGAAA-CG
1 TATA-TATATAGTTTTAAAAACAATTTTGAAAGCG
* *
829212 TATGATATATGGTTTTAAAAACATTTTTGAAAGCG
1 TAT-ATATATAGTTTTAAAAACAATTTTGAAAGCG
* ** * *
829247 TATATAATATATGGTTTTGAAAA-TGTTTTAAAAACG
1 TATAT-ATATA--GTTTTAAAAACAATTTTGAAAGCG
* * * *
829283 TATATAATATATAGTTTTGAAAACATTTTTAAAAAACG
1 --TAT-ATATATAGTTTTAAAAACAATTTT-GAAAGCG
* *
829321 TATAATATATGGTTTTGAAAACA
1 TAT-ATATATAGTTTTAAAAACA
829344 TTATATTTTG
Statistics
Matches: 109, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
34 28 0.26
35 10 0.09
36 41 0.38
37 13 0.12
38 15 0.14
39 2 0.02
ACGTcount: A:0.42, C:0.04, G:0.13, T:0.41
Consensus pattern (34 bp):
TATATATATAGTTTTAAAAACAATTTTGAAAGCG
Found at i:829264 original size:71 final size:72
Alignment explanation
Indices: 829172--829341 Score: 188
Period size: 71 Copynumber: 2.4 Consensus size: 72
829162 ATAGTTTTTT
* * * * * *
829172 AAAAC-ATATAGTATATAGTTTTTAAAATAATTTT-GAAACG-TATGATATATGGTTTTAAAAAC
1 AAAACGATATAATATATGGTTTTGAAAAT-ATTTTAAAAACGATATAATATATAGTTTTAAAAAC
*
829234 ATTTTT-G
65 ATTTTTAA
* * *
829241 AAAGCGTATATAATATATGGTTTTGAAAATGTTTTAAAAACGTATATAATATATAGTTTTGAAAA
1 AAAACG-ATATAATATATGGTTTTGAAAATATTTTAAAAACG-ATATAATATATAGTTTTAAAAA
829306 CATTTTTAA
64 CATTTTTAA
829315 AAAACG-TATAATATATGGTTTTGAAAA
1 AAAACGATATAATATATGGTTTTGAAAA
829342 CATTATATTT
Statistics
Matches: 84, Mismatches: 11, Indels: 9
0.81 0.11 0.09
Matches are distributed among these distances:
69 4 0.05
70 4 0.05
71 25 0.30
72 21 0.25
73 25 0.30
74 5 0.06
ACGTcount: A:0.44, C:0.04, G:0.12, T:0.40
Consensus pattern (72 bp):
AAAACGATATAATATATGGTTTTGAAAATATTTTAAAAACGATATAATATATAGTTTTAAAAACA
TTTTTAA
Found at i:829318 original size:38 final size:37
Alignment explanation
Indices: 829216--829345 Score: 178
Period size: 36 Copynumber: 3.6 Consensus size: 37
829206 GAAACGTATG
* * *
829216 ATATATGGTTTTAAAAACATTTTTGAAAGCGTATATA
1 ATATATGGTTTTGAAAACATTTTTAAAAACGTATATA
829253 ATATATGGTTTTG-AAA-ATGTTTTAAAAACGTATATA
1 ATATATGGTTTTGAAAACAT-TTTTAAAAACGTATATA
*
829289 ATATATAGTTTTGAAAACATTTTTAAAAAACG--TATA
1 ATATATGGTTTTGAAAACATTTTT-AAAAACGTATATA
829325 ATATATGGTTTTGAAAACATT
1 ATATATGGTTTTGAAAACATT
829346 ATATTTTGTA
Statistics
Matches: 84, Mismatches: 5, Indels: 9
0.86 0.05 0.09
Matches are distributed among these distances:
35 2 0.02
36 54 0.64
37 19 0.23
38 9 0.11
ACGTcount: A:0.42, C:0.05, G:0.12, T:0.41
Consensus pattern (37 bp):
ATATATGGTTTTGAAAACATTTTTAAAAACGTATATA
Found at i:830548 original size:20 final size:20
Alignment explanation
Indices: 830523--830582 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
830513 GTTGTTTTGC
*
830523 ATTATTTTATTATTTTATTT
1 ATTATTTTATTATTTTAATT
*
830543 ATTATTTCTTTTA-TTTAATT
1 ATTATTT-TATTATTTTAATT
830563 ATTATTATTATTATTTTAAT
1 ATTATT-TTATTATTTTAAT
830583 ATTTTTAAGA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
20 23 0.68
21 11 0.32
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (20 bp):
ATTATTTTATTATTTTAATT
Found at i:831237 original size:14 final size:13
Alignment explanation
Indices: 831204--831245 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
831194 AAATATAATA
831204 ATTTTAAATTTTT
1 ATTTTAAATTTTT
831217 ATTTTAAATAATTTT
1 ATTTTAAAT--TTTT
*
831232 -TTTTAAAATTTT
1 ATTTTAAATTTTT
831244 AT
1 AT
831246 AAACATGGCA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
12 4 0.16
13 10 0.40
14 7 0.28
15 4 0.16
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
ATTTTAAATTTTT
Found at i:831930 original size:20 final size:20
Alignment explanation
Indices: 831620--831929 Score: 428
Period size: 20 Copynumber: 15.5 Consensus size: 20
831610 GATTTTCCAT
* ** *
831620 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
831640 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
831660 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
831680 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
831700 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
831720 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
831740 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
831760 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
831780 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
831800 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
831820 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
831840 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
831860 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
831880 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
831900 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
831920 AATCGCAACG
1 AATCGCAACG
831930 AGAGAATCGC
Statistics
Matches: 259, Mismatches: 26, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
19 3 0.01
20 253 0.98
21 3 0.01
ACGTcount: A:0.33, C:0.27, G:0.20, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:831939 original size:14 final size:14
Alignment explanation
Indices: 831920--832009 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
831910 ATAATCCGTA
831920 AATCGCAACGAGAG
1 AATCGCAACGAGAG
831934 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
831951 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
831967 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
831986 AATCGCAACGAGAG
1 AATCGCAACGAGAG
832000 AATCGCAACG
1 AATCGCAACG
832010 CGAAATGAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.42, C:0.23, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:831958 original size:19 final size:18
Alignment explanation
Indices: 831919--832031 Score: 88
Period size: 19 Copynumber: 6.8 Consensus size: 18
831909 GATAATCCGT
831919 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
831934 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
831951 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
831967 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
831984 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
*
832000 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
832017 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
832032 TTTTGGTTTC
Statistics
Matches: 79, Mismatches: 4, Indels: 26
0.72 0.04 0.24
Matches are distributed among these distances:
14 24 0.30
16 15 0.19
17 12 0.15
19 28 0.35
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:831962 original size:33 final size:33
Alignment explanation
Indices: 831919--832026 Score: 198
Period size: 33 Copynumber: 3.3 Consensus size: 33
831909 GATAATCCGT
*
831919 AAATCGCAACGAGAGAATCGCAACGCGAGATGA
1 AAATCGCAACGAGAGAATCGCAACGCGAAATGA
*
831952 CAATCGCAACGAGAGAATCGCAACGCGAAATGA
1 AAATCGCAACGAGAGAATCGCAACGCGAAATGA
831985 AAATCGCAACGAGAGAATCGCAACGCGAAATGA
1 AAATCGCAACGAGAGAATCGCAACGCGAAATGA
832018 AAATCGCAA
1 AAATCGCAA
832027 TGCGATTTTG
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 72 1.00
ACGTcount: A:0.44, C:0.22, G:0.24, T:0.09
Consensus pattern (33 bp):
AAATCGCAACGAGAGAATCGCAACGCGAAATGA
Found at i:832062 original size:14 final size:14
Alignment explanation
Indices: 832043--832097 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
832033 TTTGGTTTCG
832043 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
832057 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
832076 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
832090 CGTTGCGA
1 CGTTGCGA
832098 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.09, C:0.25, G:0.24, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:832075 original size:33 final size:33
Alignment explanation
Indices: 832027--832097 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
832017 AAAATCGCAA
**
832027 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
832060 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
832093 TGCGA
1 TGCGA
832098 CAGTCATTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.08, C:0.23, G:0.25, T:0.44
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:832105 original size:33 final size:33
Alignment explanation
Indices: 832038--832119 Score: 119
Period size: 33 Copynumber: 2.5 Consensus size: 33
832028 GCGATTTTGG
***
832038 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
832071 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
*
832104 TTCTCTCGTTGCGATT
1 TT-TCGCGTTGCGATT
832120 TTCATTTATC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 32 0.73
34 12 0.27
ACGTcount: A:0.10, C:0.26, G:0.22, T:0.43
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
Found at i:832124 original size:20 final size:20
Alignment explanation
Indices: 832050--832138 Score: 75
Period size: 20 Copynumber: 4.8 Consensus size: 20
832040 TCGCGTTGCG
832050 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
832070 ATT-TCGCGTTGCG------
1 ATTCTCTCGTTGCGATTTTC
***
832083 ATTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTC
832103 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
832123 ATTTATCTCGTTGCGA
1 A-TTCTCTCGTTGCGA
832139 CTCTTCTGCA
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
13 3 0.05
14 9 0.16
19 9 0.16
20 21 0.38
21 13 0.24
ACGTcount: A:0.12, C:0.25, G:0.19, T:0.44
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:832260 original size:33 final size:33
Alignment explanation
Indices: 832218--832288 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
832208 AATACTAACT
*
832218 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
832251 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
832284 TGAAA
1 TGAAA
832289 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:832522 original size:22 final size:22
Alignment explanation
Indices: 832470--832524 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
832460 TGGTTGTGAG
**
832470 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
832492 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
832514 GGATTTCTTCG
1 GGATTTCTTCG
832525 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:832695 original size:20 final size:20
Alignment explanation
Indices: 832670--832863 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
832660 CTTTAAATAT
832670 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
832690 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
832712 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
832731 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
832751 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
832771 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
832791 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
832811 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
832831 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
832851 CGCGTTGCGATTT
1 CGCGTTGCGATTT
832864 TTGAAAATCG
Statistics
Matches: 147, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 128 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:832857 original size:60 final size:60
Alignment explanation
Indices: 832670--832863 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
832660 CTTTAAATAT
**
832670 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
832731 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
832791 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
832851 CGCGTTGCGATTT
1 CGCGTTGCGATTT
832864 TTGAAAATCG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 84 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:832874 original size:21 final size:20
Alignment explanation
Indices: 832830--832928 Score: 72
Period size: 21 Copynumber: 4.8 Consensus size: 20
832820 ATTTATGTGT
* * *
832830 TCGCGTTGCGATTTTCATAT
1 TCGCGTTGCGATTTTGAAAA
832850 TCGCGTTGCGATTTTTGAAAA
1 TCGCGTTGCGA-TTTTGAAAA
** * **
832871 TCGCAATGCGAATTTGTACTA
1 TCGCGTTGCGATTTTG-AAAA
* * *
832892 TCGCATCGCGATTTTCAAGAA
1 TCGCGTTGCGATTTTGAA-AA
832913 TCGCGTTGCGATTTTG
1 TCGCGTTGCGATTTTG
832929 GAAACTGATT
Statistics
Matches: 59, Mismatches: 17, Indels: 5
0.73 0.21 0.06
Matches are distributed among these distances:
20 16 0.27
21 43 0.73
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.37
Consensus pattern (20 bp):
TCGCGTTGCGATTTTGAAAA
Found at i:832943 original size:20 final size:20
Alignment explanation
Indices: 832918--832969 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
832908 AAGAATCGCG
*
832918 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
832938 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
832958 TTGCGATTCTGG
1 TTGCGATTCTGG
832970 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:837530 original size:32 final size:32
Alignment explanation
Indices: 837489--837552 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
837479 ATTCTTATTC
837489 TTATTATCTAATGTGGAACAATACATCTGCTT
1 TTATTATCTAATGTGGAACAATACATCTGCTT
837521 TTATTATCTAATGTGGAACAATACATCTGCTT
1 TTATTATCTAATGTGGAACAATACATCTGCTT
837553 GTAATATTCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.41
Consensus pattern (32 bp):
TTATTATCTAATGTGGAACAATACATCTGCTT
Found at i:843351 original size:21 final size:21
Alignment explanation
Indices: 843300--843352 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
843290 ATTATTACCA
843300 TCGCAATGCGATTTTCCAATT
1 TCGCAATGCGATTTTCCAATT
**
843321 TCGCGTTGCGATTTTCCTAA-T
1 TCGCAATGCGATTTTCC-AATT
843342 TCGCAATGCGA
1 TCGCAATGCGA
843353 ATAAGTAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 25 0.93
22 2 0.07
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.36
Consensus pattern (21 bp):
TCGCAATGCGATTTTCCAATT
Found at i:843367 original size:20 final size:21
Alignment explanation
Indices: 843342--843393 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
843332 TTTTCCTAAT
*
843342 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
**
843362 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTAAGAAAA
843383 TCGCAATGCGA
1 TCGCAATGCGA
843394 TACTGACTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.21
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:843406 original size:41 final size:42
Alignment explanation
Indices: 843379--843516 Score: 160
Period size: 41 Copynumber: 3.4 Consensus size: 42
843369 GCGAATTTGG
843379 AAAATCGCAATGCGATACTGACTATCGCAACGCG-ATAATAC
1 AAAATCGCAATGCGATACTGACTATCGCAACGCGAATAATAC
* *
843420 AAAATCGCAATGCGATACTGACTTTCGCAACGCG-ATACTTAC
1 AAAATCGCAATGCGATACTGACTATCGCAACGCGAATA-ATAC
** * * *
843462 --TTTCGCAACGCGATACTGACTTTCGCAACGAG-ATAATAC
1 AAAATCGCAATGCGATACTGACTATCGCAACGCGAATAATAC
*
843501 ATAATCGCAATGCGAT
1 AAAATCGCAATGCGAT
843517 TTTCAAAGCG
Statistics
Matches: 84, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
39 3 0.04
40 31 0.37
41 47 0.56
42 3 0.04
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.23
Consensus pattern (42 bp):
AAAATCGCAATGCGATACTGACTATCGCAACGCGAATAATAC
Found at i:843407 original size:20 final size:20
Alignment explanation
Indices: 843382--843496 Score: 124
Period size: 20 Copynumber: 5.7 Consensus size: 20
843372 AATTTGGAAA
*
843382 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
843402 ATCGCAACGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
*
843423 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
843443 TTCGCAACGCGATACTTACT
1 ATCGCAACGCGATACTGACT
*
843463 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
843483 TTCGCAACGAGATA
1 ATCGCAACGCGATA
843497 ATACATAATC
Statistics
Matches: 81, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
19 2 0.02
20 63 0.78
21 14 0.17
22 2 0.02
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:843727 original size:22 final size:22
Alignment explanation
Indices: 843684--843727 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
843674 ACTCTCTCAC
*
843684 CCATCTCCGACGAAATATGTCT
1 CCATCTCCGACGAAATACGTCT
* *
843706 CCATCTCCGGCGAAATCCGTCT
1 CCATCTCCGACGAAATACGTCT
843728 ATCTCCATCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.23, C:0.36, G:0.16, T:0.25
Consensus pattern (22 bp):
CCATCTCCGACGAAATACGTCT
Found at i:843956 original size:19 final size:19
Alignment explanation
Indices: 843932--843979 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
843922 ATCAACCGAG
843932 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
843951 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
843970 AATCTCAACG
1 AATCGCAACG
843980 ACAAAATCGC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.46, C:0.23, G:0.19, T:0.12
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:844057 original size:20 final size:20
Alignment explanation
Indices: 844008--844066 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
843998 TTTATTCTCT
* **
844008 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATTGTCATTTTCG
844028 CGTTGCGATTGTCATTTTCG
1 CGTTGCGATTGTCATTTTCG
* *
844048 TGTTGCGATTTTCATTTTC
1 CGTTGCGATTGTCATTTTC
844067 AGAAACTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.15, C:0.19, G:0.22, T:0.44
Consensus pattern (20 bp):
CGTTGCGATTGTCATTTTCG
Found at i:844257 original size:25 final size:24
Alignment explanation
Indices: 844203--844257 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
844193 TGTTTATTAT
* *
844203 TGTTTTTGGTATATCTTCACAGTG
1 TGTTTTTGGTATATCTTAACAGTA
844227 TAGTTTTTGGTATATC-TAACTTAGTA
1 T-GTTTTTGGTATATCTTAAC--AGTA
844253 TGTTT
1 TGTTT
844258 ATTGTTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.53
Consensus pattern (24 bp):
TGTTTTTGGTATATCTTAACAGTA
Found at i:845407 original size:18 final size:18
Alignment explanation
Indices: 845386--845430 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
845376 TCCACTTCGG
*
845386 GAGCCATCACCTCACCTA
1 GAGCCATCACCTCACCCA
*
845404 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
845422 GAGCCATCA
1 GAGCCATCA
845431 TCTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.29, C:0.42, G:0.13, T:0.16
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Done.