Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008703.1 Hibiscus syriacus cultivar Beakdansim tig00111742_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: 1275178
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 6
Found at i:656378 original size:2 final size:2
Alignment explanation
Indices: 656365--656450 Score: 145
Period size: 2 Copynumber: 43.0 Consensus size: 2
656355 TTAAAATAAC
*
656365 AT AT AA 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
* *
656407 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AG 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
656449 AT
1 AT
656451 TGAATGAATA
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 78 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:657598 original size:3 final size:3
Alignment explanation
Indices: 657578--657626 Score: 64
Period size: 3 Copynumber: 16.7 Consensus size: 3
657568 TAATTAATTT
* * *
657578 ATA ATG ATA ATG ATA ATA ATA ATA ATA GTA ATA ATA ATA ATA AT- ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
657625 AT
1 AT
657627 CAAAAAAATG
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:661656 original size:3 final size:3
Alignment explanation
Indices: 661646--661697 Score: 70
Period size: 3 Copynumber: 17.7 Consensus size: 3
661636 CATTTTTTTG
* * *
661646 ATT A-T ATT ATT ATT ATT ATT ACT ATT ATT ATT ATT ATT ATC ATT ATC
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
661693 ATT AT
1 ATT AT
661698 AAATTAATTA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
2 2 0.05
3 40 0.95
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:662828 original size:2 final size:2
Alignment explanation
Indices: 662821--662874 Score: 81
Period size: 2 Copynumber: 27.0 Consensus size: 2
662811 TATTCATTCA
* *
662821 AT AT AT AT CT AT AC 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
*
662863 AT AT AT TT AT AT
1 AT AT AT AT AT AT
662875 GTTTATTTTA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:662879 original size:8 final size:8
Alignment explanation
Indices: 662822--662880 Score: 55
Period size: 8 Copynumber: 7.4 Consensus size: 8
662812 ATTCATTCAA
*
662822 TATATATC
1 TATATATT
* *
662830 TATACATA
1 TATATATT
*
662838 TATATATA
1 TATATATT
*
662846 TATATATA
1 TATATATT
*
662854 TATATATA
1 TATATATT
662862 TATATATT
1 TATATATT
*
662870 TATATGTT
1 TATATATT
662878 TAT
1 TAT
662881 TTTAATGCAT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
8 46 1.00
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (8 bp):
TATATATT
Found at i:668661 original size:5 final size:5
Alignment explanation
Indices: 668651--668696 Score: 53
Period size: 5 Copynumber: 9.8 Consensus size: 5
668641 TGACCGGTCT
* *
668651 GACCC GACCC GA-CT GACCC GACCC GACCC GA-CT G-CCC GACCC GACC
1 GACCC GACCC GACCC GACCC GACCC GACCC GACCC GACCC GACCC GACC
668697 GTTGACCGTT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
4 7 0.21
5 27 0.79
ACGTcount: A:0.20, C:0.54, G:0.22, T:0.04
Consensus pattern (5 bp):
GACCC
Found at i:668666 original size:14 final size:14
Alignment explanation
Indices: 668649--668677 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
668639 TCTGACCGGT
668649 CTGACCCGACCCGA
1 CTGACCCGACCCGA
668663 CTGACCCGACCCGA
1 CTGACCCGACCCGA
668677 C
1 C
668678 CCGACTGCCC
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:0.21, C:0.52, G:0.21, T:0.07
Consensus pattern (14 bp):
CTGACCCGACCCGA
Found at i:668675 original size:19 final size:18
Alignment explanation
Indices: 668651--668696 Score: 83
Period size: 19 Copynumber: 2.5 Consensus size: 18
668641 TGACCGGTCT
668651 GACCCGACCCGACTGACCC
1 GACCCGACCCGACTG-CCC
668670 GACCCGACCCGACTGCCC
1 GACCCGACCCGACTGCCC
668688 GACCCGACC
1 GACCCGACC
668697 GTTGACCGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 12 0.44
19 15 0.56
ACGTcount: A:0.20, C:0.54, G:0.22, T:0.04
Consensus pattern (18 bp):
GACCCGACCCGACTGCCC
Found at i:668725 original size:6 final size:7
Alignment explanation
Indices: 668693--668737 Score: 56
Period size: 7 Copynumber: 6.4 Consensus size: 7
668683 TGCCCGACCC
668693 GACCGTT
1 GACCGTT
668700 GACCGTT
1 GACCGTT
*
668707 GAACTGTT
1 G-ACCGTT
668715 GACCG-T
1 GACCGTT
668721 GACCGTT
1 GACCGTT
*
668728 GACCATT
1 GACCGTT
668735 GAC
1 GAC
668738 TTCCTTTGAC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
6 6 0.18
7 21 0.64
8 6 0.18
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.27
Consensus pattern (7 bp):
GACCGTT
Found at i:672075 original size:49 final size:50
Alignment explanation
Indices: 671977--672114 Score: 174
Period size: 49 Copynumber: 2.8 Consensus size: 50
671967 TATTTATTCC
* * * *
671977 TCATTTGCTTATTGTTGTAACTAAC-ATTGTTTTGTCTTTATGTTATTTG
1 TCATGTGCTTATTGTTGTAACAAACTCTTTTTTTGTCTTTATGTTATTTG
*
672026 TCATGTGCTTATTGTTGCAACAAACTCTTTTTTTG-CTTTTATGTT-TTTG
1 TCATGTGCTTATTGTTGTAACAAACTCTTTTTTTGTC-TTTATGTTATTTG
* * *
672075 TCATGTGGTTATTGTTATAACAAACTCTTTTTTAGTCTTT
1 TCATGTGCTTATTGTTGTAACAAACTCTTTTTTTGTCTTT
672115 TTGTCATGTG
Statistics
Matches: 77, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
49 61 0.79
50 16 0.21
ACGTcount: A:0.19, C:0.12, G:0.14, T:0.55
Consensus pattern (50 bp):
TCATGTGCTTATTGTTGTAACAAACTCTTTTTTTGTCTTTATGTTATTTG
Found at i:673179 original size:31 final size:31
Alignment explanation
Indices: 673101--673179 Score: 72
Period size: 31 Copynumber: 2.5 Consensus size: 31
673091 AGTTTCTAGA
* *
673101 GTAACAAATTGTTCACTAACATTATCTACTT
1 GTAACAAAATGATCACTAACATTATCTACTT
* * *
673132 GTAATAAAAT-AGTCACTAACGTTAT-TAATTT
1 GTAACAAAATGA-TCACTAACATTATCT-ACTT
*
673163 GTAACAAACTGATCACT
1 GTAACAAAATGATCACT
673180 CCACCATCAT
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
30 1 0.03
31 36 0.95
32 1 0.03
ACGTcount: A:0.39, C:0.16, G:0.09, T:0.35
Consensus pattern (31 bp):
GTAACAAAATGATCACTAACATTATCTACTT
Found at i:674314 original size:3 final size:3
Alignment explanation
Indices: 674308--674339 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
674298 ATTATTGTAT
674308 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
674340 GGTAAAGTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:675247 original size:38 final size:38
Alignment explanation
Indices: 675196--675271 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
675186 CTTCATTTTC
675196 CAATGTAAAACAATTAGTAACAAATATTACAACTTTGA
1 CAATGTAAAACAATTAGTAACAAATATTACAACTTTGA
*
675234 CAATGTAAAACAATTTGTAACAAATATTACAACTTTGA
1 CAATGTAAAACAATTAGTAACAAATATTACAACTTTGA
675272 AGTCATCAGT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.49, C:0.13, G:0.08, T:0.30
Consensus pattern (38 bp):
CAATGTAAAACAATTAGTAACAAATATTACAACTTTGA
Found at i:675265 original size:19 final size:20
Alignment explanation
Indices: 675212--675270 Score: 61
Period size: 19 Copynumber: 3.0 Consensus size: 20
675202 AAAACAATTA
675212 GTAACAAATATTACAACTTT
1 GTAACAAATATTACAACTTT
* **
675232 G--ACAATGTAAAACAA-TTT
1 GTAACAA-ATATTACAACTTT
675250 GTAACAAATATTACAACTTT
1 GTAACAAATATTACAACTTT
675270 G
1 G
675271 AAGTCATCAG
Statistics
Matches: 29, Mismatches: 6, Indels: 8
0.67 0.14 0.19
Matches are distributed among these distances:
18 8 0.28
19 12 0.41
20 9 0.31
ACGTcount: A:0.46, C:0.14, G:0.08, T:0.32
Consensus pattern (20 bp):
GTAACAAATATTACAACTTT
Found at i:681980 original size:21 final size:21
Alignment explanation
Indices: 681920--681981 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 21
681910 TCAACTTACG
681920 AAATTTGACAATTTGCAAGCC
1 AAATTTGACAATTTGCAAGCC
** *
681941 AAACCTAACAA--T-C--GCC
1 AAATTTGACAATTTGCAAGCC
681957 AAATTTGACAATTTGCAAGCC
1 AAATTTGACAATTTGCAAGCC
681978 AAAT
1 AAAT
681982 CTAACATCTA
Statistics
Matches: 30, Mismatches: 6, Indels: 10
0.65 0.13 0.22
Matches are distributed among these distances:
16 11 0.37
18 2 0.07
19 2 0.07
21 15 0.50
ACGTcount: A:0.42, C:0.23, G:0.11, T:0.24
Consensus pattern (21 bp):
AAATTTGACAATTTGCAAGCC
Found at i:689573 original size:18 final size:18
Alignment explanation
Indices: 689547--689586 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
689537 AAAGTAGTTA
*
689547 TTGTCTGTATTTATAACT
1 TTGTATGTATTTATAACT
689565 TTGTATGTATTTATAACT
1 TTGTATGTATTTATAACT
689583 TTGT
1 TTGT
689587 CCCTTATCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.23, C:0.07, G:0.12, T:0.57
Consensus pattern (18 bp):
TTGTATGTATTTATAACT
Found at i:692840 original size:18 final size:18
Alignment explanation
Indices: 692817--692861 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
692807 ACCGATCACA
692817 ACCCGACCCAACCCGTTG
1 ACCCGACCCAACCCGTTG
692835 ACCCGACCCAACCCGTTG
1 ACCCGACCCAACCCGTTG
*
692853 ACCCAACCC
1 ACCCGACCC
692862 GACCTATTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.24, C:0.53, G:0.13, T:0.09
Consensus pattern (18 bp):
ACCCGACCCAACCCGTTG
Found at i:695385 original size:12 final size:12
Alignment explanation
Indices: 695348--695386 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
695338 ATCTGAAACT
695348 TGAAATGGATTC
1 TGAAATGGATTC
*
695360 TGATAT-GATATC
1 TGAAATGGAT-TC
695372 TGAAATGGATTC
1 TGAAATGGATTC
695384 TGA
1 TGA
695387 TCTGATACTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
11 3 0.13
12 17 0.74
13 3 0.13
ACGTcount: A:0.33, C:0.08, G:0.23, T:0.36
Consensus pattern (12 bp):
TGAAATGGATTC
Found at i:695423 original size:24 final size:24
Alignment explanation
Indices: 695332--695422 Score: 121
Period size: 24 Copynumber: 3.8 Consensus size: 24
695322 TTCGATTTGA
*
695332 ATTCTGATCTGAAACTTGAAATGG
1 ATTCTGATCTGATACTTGAAATGG
*
695356 ATTCTGATATGATA-TCTGAAATGG
1 ATTCTGATCTGATACT-TGAAATGG
*
695380 ATTCTGATCTGATACTTGACATGG
1 ATTCTGATCTGATACTTGAAATGG
* *
695404 ATTCTTATCTGTTACTTGA
1 ATTCTGATCTGATACTTGA
695423 CCTAATTTCT
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
23 1 0.02
24 57 0.97
25 1 0.02
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.40
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGAAATGG
Found at i:695432 original size:24 final size:24
Alignment explanation
Indices: 695381--695454 Score: 69
Period size: 24 Copynumber: 3.1 Consensus size: 24
695371 CTGAAATGGA
* * *
695381 TTCTGATCTGATACTTGACATGGA-
1 TTCTGATATGATACTTGACCT-AAT
* * *
695405 TTCTTATCTGTTACTTGACCTAAT
1 TTCTGATATGATACTTGACCTAAT
*
695429 TTCTGATATGATACTTGACCTGAT
1 TTCTGATATGATACTTGACCTAAT
695453 TT
1 TT
695455 ATGTTTTGAT
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
23 1 0.02
24 40 0.98
ACGTcount: A:0.23, C:0.18, G:0.15, T:0.45
Consensus pattern (24 bp):
TTCTGATATGATACTTGACCTAAT
Found at i:697564 original size:13 final size:13
Alignment explanation
Indices: 697546--697573 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
697536 ACCCGACCCA
697546 ACCCGACCCGTTG
1 ACCCGACCCGTTG
697559 ACCCGACCCGTTG
1 ACCCGACCCGTTG
697572 AC
1 AC
697574 TCGTTGACCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.18, C:0.46, G:0.21, T:0.14
Consensus pattern (13 bp):
ACCCGACCCGTTG
Found at i:700047 original size:24 final size:24
Alignment explanation
Indices: 700020--700131 Score: 129
Period size: 24 Copynumber: 4.7 Consensus size: 24
700010 ATTTGAGTTA
*
700020 TGATCTGATACTTAACATGGATTC
1 TGATCTGATACTTGACATGGATTC
*
700044 TGATCTGATA-TCTGATATGGATTC
1 TGATCTGATACT-TGACATGGATTC
*
700068 TGATCTGATACTTGACTTGGATTC
1 TGATCTGATACTTGACATGGATTC
* *
700092 TGATCTGTTACTTGAC-TTGATTTC
1 TGATCTGATACTTGACATGGA-TTC
* *
700116 TAATATGATACTTGAC
1 TGATCTGATACTTGAC
700132 CTGATTTATG
Statistics
Matches: 76, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
23 4 0.05
24 71 0.93
25 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.18, T:0.42
Consensus pattern (24 bp):
TGATCTGATACTTGACATGGATTC
Found at i:700136 original size:24 final size:24
Alignment explanation
Indices: 700073--700138 Score: 80
Period size: 24 Copynumber: 2.8 Consensus size: 24
700063 GATTCTGATC
* *
700073 TGATACTTGACTTGGA-TTCTGATC
1 TGATACTTGACTT-GATTTCTAATA
*
700097 TGTTACTTGACTTGATTTCTAATA
1 TGATACTTGACTTGATTTCTAATA
*
700121 TGATACTTGACCTGATTT
1 TGATACTTGACTTGATTT
700139 ATGTTTTGAT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
23 2 0.06
24 34 0.94
ACGTcount: A:0.23, C:0.15, G:0.17, T:0.45
Consensus pattern (24 bp):
TGATACTTGACTTGATTTCTAATA
Found at i:702508 original size:39 final size:38
Alignment explanation
Indices: 702400--702588 Score: 130
Period size: 39 Copynumber: 4.8 Consensus size: 38
702390 AGAAAAAATT
* * **
702400 CCCTATGCACAAGGAAAATGAGCATAAAGTAAAGTTTC
1 CCCTATGCACAAAGCAAATGAGCATACGGTAAAGTTTC
* * *
702438 CCCTATGCACGATGCAAAAT-AGGCATGCGGTAAAGTTTTC
1 CCCTATGCACAAAGC-AAATGA-GCATACGGTAAAG-TTTC
* ** *
702478 CCCTATGCACAAAGCAAATGATCATACGGTAAGAACTTA
1 CCCTATGCACAAAGCAAATGAGCATACGGTAA-AGTTTC
** ** * *
702517 CCCTATGCACAAAGCAAA-GAAGTTTGTGGTAAGGACTTAC
1 CCCTATGCACAAAGCAAATG-AGCATACGGTAA--AGTTTC
* *
702557 CCCTATGCACAAAGCAAATGAGCCTGCGGTAA
1 CCCTATGCACAAAGCAAATGAGCATACGGTAA
702589 GGGTCACCTT
Statistics
Matches: 118, Mismatches: 25, Indels: 14
0.75 0.16 0.09
Matches are distributed among these distances:
38 14 0.12
39 54 0.46
40 49 0.42
41 1 0.01
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.21
Consensus pattern (38 bp):
CCCTATGCACAAAGCAAATGAGCATACGGTAAAGTTTC
Found at i:702588 original size:40 final size:40
Alignment explanation
Indices: 702437--702590 Score: 145
Period size: 40 Copynumber: 3.9 Consensus size: 40
702427 AGTAAAGTTT
* * * * *
702437 CCCCTATGCACGATGCAAAAT-AGGCATGCGGTAAAG-TTTT
1 CCCCTATGCACAAAGC-AAATGA-GCATGCGGTAAGGACTTA
* * *
702477 CCCCTATGCACAAAGCAAATGATCATACGGTAAGAACTTA
1 CCCCTATGCACAAAGCAAATGAGCATGCGGTAAGGACTTA
** *
702517 -CCCTATGCACAAAGCAAA-GAAGTTTGTGGTAAGGACTTA
1 CCCCTATGCACAAAGCAAATG-AGCATGCGGTAAGGACTTA
*
702556 CCCCTATGCACAAAGCAAATGAGCCTGCGGTAAGG
1 CCCCTATGCACAAAGCAAATGAGCATGCGGTAAGG
702591 GTCACCTTAG
Statistics
Matches: 92, Mismatches: 17, Indels: 10
0.77 0.14 0.08
Matches are distributed among these distances:
38 1 0.01
39 44 0.48
40 46 0.50
41 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.21
Consensus pattern (40 bp):
CCCCTATGCACAAAGCAAATGAGCATGCGGTAAGGACTTA
Found at i:703641 original size:27 final size:27
Alignment explanation
Indices: 703603--703662 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
703593 GGTATTTTGG
* *
703603 TCATTTTAGAGTTTATGAGTACTTCAT
1 TCATTTTAGAGTTCAAGAGTACTTCAT
* *
703630 TCATTTTAGAGTTCAAGGGTATTTCAT
1 TCATTTTAGAGTTCAAGAGTACTTCAT
703657 TCATTT
1 TCATTT
703663 CATTCATCCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.25, C:0.12, G:0.15, T:0.48
Consensus pattern (27 bp):
TCATTTTAGAGTTCAAGAGTACTTCAT
Found at i:704599 original size:20 final size:20
Alignment explanation
Indices: 704574--704615 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
704564 GGTCAAAGGG
704574 TCAGACCAATTTAGGTTGAC
1 TCAGACCAATTTAGGTTGAC
**
704594 TCAGACCGTTTTAGGTTGAC
1 TCAGACCAATTTAGGTTGAC
704614 TC
1 TC
704616 GCTTTGATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.33
Consensus pattern (20 bp):
TCAGACCAATTTAGGTTGAC
Found at i:708275 original size:13 final size:13
Alignment explanation
Indices: 708257--708281 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
708247 ACAATAAAAC
708257 GTTTGTATCCCAA
1 GTTTGTATCCCAA
708270 GTTTGTATCCCA
1 GTTTGTATCCCA
708282 TAATAATACT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.24, G:0.16, T:0.40
Consensus pattern (13 bp):
GTTTGTATCCCAA
Found at i:710575 original size:2 final size:2
Alignment explanation
Indices: 710568--710615 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
710558 AATTTGACAG
710568 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
710610 AT AT AT
1 AT AT AT
710616 GTTCAAAGTG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:712466 original size:20 final size:21
Alignment explanation
Indices: 712432--712488 Score: 57
Period size: 20 Copynumber: 2.8 Consensus size: 21
712422 TGATCAAAAT
*
712432 AAAAGAAAT-TAAAATTA-TA
1 AAAATAAATATAAAATTATTA
*
712451 AAACTAAATATAAAA-TATTA
1 AAAATAAATATAAAATTATTA
*
712471 AAAATAAAGATAATAATT
1 AAAATAAATATAA-AATT
712489 CAAAATATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
19 9 0.30
20 18 0.60
21 2 0.07
22 1 0.03
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.28
Consensus pattern (21 bp):
AAAATAAATATAAAATTATTA
Found at i:712913 original size:9 final size:9
Alignment explanation
Indices: 712901--712933 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
712891 GAATTCCATT
*
712901 TCTCTTCTT
1 TCTCTTCTC
712910 TCTCTTCTC
1 TCTCTTCTC
712919 TCTCTTCTC
1 TCTCTTCTC
712928 TCTCTT
1 TCTCTT
712934 ATGAGAGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (9 bp):
TCTCTTCTC
Found at i:713729 original size:3 final size:3
Alignment explanation
Indices: 713697--713764 Score: 73
Period size: 3 Copynumber: 22.0 Consensus size: 3
713687 TTGGGTTTTG
* * * *
713697 TAA TAT TAA TAAA TAA TATA TAA TAT TAA TAA TAA AAA TTA TAA TAA
1 TAA TAA TAA T-AA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
713744 TAA TAA TAA TTA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA
713765 ATTTAAATTT
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
3 47 0.89
4 6 0.11
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:714052 original size:76 final size:76
Alignment explanation
Indices: 713898--714162 Score: 422
Period size: 76 Copynumber: 3.5 Consensus size: 76
713888 GATGAAAATG
* * * * *
713898 TTTGAAAACATCATGCATTGAAGGGCTTACAGATGACCCTAAGGTTTTTTGAAAACATCAAAAAG
1 TTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGG--CTTTGAAAACATCAAAAAG
*
713963 CTCCCGAAGGCTT
64 CTCCCAAAGGCTT
*
713976 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
*
714041 CCCTAAGGCTT
66 CCCAAAGGCTT
* *
714052 TTTGGAAACATCATGCAATGCAGGACTTACAGATGGCCCTAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
714117 CCCAAAGGCTT
66 CCCAAAGGCTT
714128 TTTGGAAACATCATGCACTGCAGGACTTACAGATG
1 TTTGGAAACATCATGCACTGCAGGACTTACAGATG
714163 TGAGAAATAG
Statistics
Matches: 176, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
76 136 0.77
78 40 0.23
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.25
Consensus pattern (76 bp):
TTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
CCCAAAGGCTT
Found at i:714493 original size:170 final size:166
Alignment explanation
Indices: 714166--714493 Score: 498
Period size: 170 Copynumber: 2.0 Consensus size: 166
714156 ACAGATGTGA
* *
714166 GAAATAGTTTATTAAGTAAAAAAACTAAGGAAATCATTTTCTTACTTTTCAACAATTTCATTTTT
1 GAAATAGTTTACTAAGTAAAAAAACTAAGAAAATCATTTTCTTACTTTTCAACAATTTCATTTTT
** *
714231 AGAAAAGATTGAATGAGAAACTATGGAAATCGTTTTCTCATTATTTTTCAAAATAACATGTTGAT
66 AGAAAAGATAAAATGAGAAACTATGAAAATCGTTTTCTCATTATTTTTCAAAATAACATGTTGAT
714296 TGGGTAACATGCCCCAATCTCAAGATAAGGCTGTTG
131 TGGGTAACATGCCCCAATCTCAAGATAAGGCTGTTG
* *
714332 GAAATAGTTTACTAAGT-AGAAAACTAAGAAAATCGTTTTCTTACTTTTCAACAATTTCA-TTTT
1 GAAATAGTTTACTAAGTAAAAAAACTAAGAAAATCATTTTCTTACTTTTCAACAATTTCATTTTT
* **
714395 AGAAAAGATAAAATGAGAAACTATGAAAATCGTTTTCTCATTCTGTTTTTTTTTTGAAATAACAT
66 AGAAAAGATAAAATGAGAAACTATGAAAATCGTTTTCTCA------TTATTTTTCAAAATAACAT
714460 GTTGATTGGGTAACATGCCCCAATCTCAAGATAA
125 GTTGATTGGGTAACATGCCCCAATCTCAAGATAA
714494 TGCTCATTTT
Statistics
Matches: 146, Mismatches: 10, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
164 41 0.28
165 39 0.27
166 16 0.11
170 50 0.34
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.36
Consensus pattern (166 bp):
GAAATAGTTTACTAAGTAAAAAAACTAAGAAAATCATTTTCTTACTTTTCAACAATTTCATTTTT
AGAAAAGATAAAATGAGAAACTATGAAAATCGTTTTCTCATTATTTTTCAAAATAACATGTTGAT
TGGGTAACATGCCCCAATCTCAAGATAAGGCTGTTG
Found at i:715084 original size:22 final size:22
Alignment explanation
Indices: 715008--715081 Score: 112
Period size: 22 Copynumber: 3.4 Consensus size: 22
714998 AATAAAGCTT
715008 TCATCTTTAAAAAGAGAATATA
1 TCATCTTTAAAAAGAGAATATA
*
715030 TCATCTTTAAAAAGAGAATCTA
1 TCATCTTTAAAAAGAGAATATA
* * *
715052 TCATCTTTGAAAATAGAATTTA
1 TCATCTTTAAAAAGAGAATATA
715074 TCATCTTT
1 TCATCTTT
715082 GAAGAGTGTA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 48 1.00
ACGTcount: A:0.42, C:0.12, G:0.08, T:0.38
Consensus pattern (22 bp):
TCATCTTTAAAAAGAGAATATA
Found at i:715534 original size:54 final size:55
Alignment explanation
Indices: 715452--715662 Score: 295
Period size: 54 Copynumber: 3.9 Consensus size: 55
715442 AGAATAGCAG
* * *
715452 GTTCGTAAAACATTTGACAGCGCATTCATCCTTTTC-TGTGGCTTCTGCTCAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTTCTTGTGGCTTCTGCTCAGAC
* *
715506 GTTCGTAAAACATTTGACAACACATTCAT-CATTTCTTGTGGTTTCTGCTCAGAC
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTTCTTGTGGCTTCTGCTCAGAC
* * *
715560 GTTCGTAAAAGCATTTGTCAACACATTCATCC-TTTCTTGTGGTTTCTGCCCAGAC
1 GTTCGTAAAA-CATTTGACAACACATTCATCCTTTTCTTGTGGCTTCTGCTCAGAC
* *
715615 GTTCGTAAAGCGTTTGACAACACATTCATCCTTTTC-TGTGGCTTCTGC
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTTCTTGTGGCTTCTGC
715663 CAAGATTTTT
Statistics
Matches: 142, Mismatches: 11, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
53 5 0.04
54 83 0.58
55 53 0.37
56 1 0.01
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (55 bp):
GTTCGTAAAACATTTGACAACACATTCATCCTTTTCTTGTGGCTTCTGCTCAGAC
Found at i:715642 original size:109 final size:108
Alignment explanation
Indices: 715452--715662 Score: 291
Period size: 109 Copynumber: 1.9 Consensus size: 108
715442 AGAATAGCAG
* * * *
715452 GTTCGTAAAACATTTGACAGCGCATTCATCCTTTTCTGTGGCTTCTGCTCAGATGTTCGTAAAAC
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTTCTGTGGCTTCTGCCCAGACGTTCGTAAAAC
*
715517 ATTTGACAACACATTCATCA-TTTCTTGTGGTTTCTGCTCAGAC
66 ATTTGACAACACATTCATCATTTTC-TGTGGCTTCTGCTCAGAC
* *
715560 GTTCGTAAAAGCATTTGTCAACACATTCATCC-TTTCTTGTGGTTTCTGCCCAGACGTTCGTAAA
1 GTTCGTAAAA-CATTTGACAACACATTCATCCTTTTC-TGTGGCTTCTGCCCAGACGTTCGTAAA
* * *
715624 GCGTTTGACAACACATTCATCCTTTTCTGTGGCTTCTGC
64 ACATTTGACAACACATTCATCATTTTCTGTGGCTTCTGC
715663 CAAGATTTTT
Statistics
Matches: 90, Mismatches: 10, Indels: 5
0.86 0.10 0.05
Matches are distributed among these distances:
108 14 0.16
109 72 0.80
110 4 0.04
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (108 bp):
GTTCGTAAAACATTTGACAACACATTCATCCTTTTCTGTGGCTTCTGCCCAGACGTTCGTAAAAC
ATTTGACAACACATTCATCATTTTCTGTGGCTTCTGCTCAGAC
Found at i:717582 original size:31 final size:31
Alignment explanation
Indices: 717547--717609 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
717537 AGAGATGTGG
717547 TCTGAATTCATCAATTGCAGAGTTGACAGAT
1 TCTGAATTCATCAATTGCAGAGTTGACAGAT
717578 TCTGAATTCATCAATTGCAGAGTTGACAGAT
1 TCTGAATTCATCAATTGCAGAGTTGACAGAT
717609 T
1 T
717610 TTATATGTGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (31 bp):
TCTGAATTCATCAATTGCAGAGTTGACAGAT
Found at i:717988 original size:114 final size:114
Alignment explanation
Indices: 717787--718006 Score: 368
Period size: 114 Copynumber: 1.9 Consensus size: 114
717777 GATCATGCAG
* * *
717787 TTCATCTTTTAATTCCAATGATTGGTTTTGGGGTTCCTACCGAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTTAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
* * *
717852 ATACTTCCAGAAGATGCAATTGGGTCTTCTTATTTATACTATGAGCGAA
66 ACACTTCCAGAAGATGCAATTGGGGCTCCTTATTTATACTATGAGCGAA
*
717901 TTCATCTTTTAAATCCAATGATTTGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTTAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
*
717966 ACACTTCCAGAAGATGCTATTGGGGCTCCTTATTTATACTA
66 ACACTTCCAGAAGATGCAATTGGGGCTCCTTATTTATACTA
718007 CGAGAACATG
Statistics
Matches: 98, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
114 98 1.00
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.34
Consensus pattern (114 bp):
TTCATCTTTTAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
ACACTTCCAGAAGATGCAATTGGGGCTCCTTATTTATACTATGAGCGAA
Found at i:725205 original size:19 final size:20
Alignment explanation
Indices: 725163--725210 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
725153 CTAACAGACA
725163 AATAAAAT-AAAAAATACCTG
1 AATAAAATAAAAAAATA-CTG
*
725183 AATAAAATAAAAAAATA-TT
1 AATAAAATAAAAAAATACTG
725202 AATAAAATA
1 AATAAAATA
725211 GTATAAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 10 0.38
20 8 0.31
21 8 0.31
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.23
Consensus pattern (20 bp):
AATAAAATAAAAAAATACTG
Found at i:726658 original size:9 final size:9
Alignment explanation
Indices: 726633--726667 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
726623 CAGAATTCCA
*
726633 TTTCTCTCC
1 TTTCTCTTC
726642 TTTCTCTTC
1 TTTCTCTTC
726651 TTTCTCTTC
1 TTTCTCTTC
*
726660 TCTCTCTT
1 TTTCTCTT
726668 ATGAGAGAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (9 bp):
TTTCTCTTC
Found at i:727454 original size:3 final size:3
Alignment explanation
Indices: 727429--727481 Score: 79
Period size: 3 Copynumber: 17.0 Consensus size: 3
727419 TTGGGTTTTG
*
727429 TAA TAT TAA TAAA TAA TATA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA T-AA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
727476 TAA TAA
1 TAA TAA
727482 ATTTAAATTT
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
3 40 0.87
4 6 0.13
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:733350 original size:17 final size:17
Alignment explanation
Indices: 733303--733370 Score: 66
Period size: 17 Copynumber: 4.0 Consensus size: 17
733293 TACGAGTAAA
* * *
733303 TTTAATAAATGAAATAG
1 TTTAATTAATGAACTAT
*
733320 TTTAATGAATGAACTAT
1 TTTAATTAATGAACTAT
733337 TTTAATTAATGAACTA-
1 TTTAATTAATGAACTAT
* *
733353 CTTCATTAAATGAACTAT
1 TTTAATT-AATGAACTAT
733371 ATGATTTAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
16 5 0.12
17 38 0.88
ACGTcount: A:0.44, C:0.07, G:0.09, T:0.40
Consensus pattern (17 bp):
TTTAATTAATGAACTAT
Found at i:736800 original size:17 final size:17
Alignment explanation
Indices: 736771--736820 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
736761 TAAGAGTAAA
*
736771 TTTAATAAATGAACTAG
1 TTTAATGAATGAACTAG
* *
736788 TTTGATGAATGAACTAT
1 TTTAATGAATGAACTAG
*
736805 TTTAATTAATGAACTA
1 TTTAATGAATGAACTA
736821 CTTCCCTAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.42, C:0.06, G:0.12, T:0.40
Consensus pattern (17 bp):
TTTAATGAATGAACTAG
Found at i:743727 original size:17 final size:16
Alignment explanation
Indices: 743705--743754 Score: 64
Period size: 17 Copynumber: 3.0 Consensus size: 16
743695 AATTAAGAGT
*
743705 TATTTTAATAAATGAA
1 TATTTTAATGAATGAA
*
743721 CTATTTTGATGAATGAA
1 -TATTTTAATGAATGAA
743738 TAATTTTAATGAATGAA
1 T-ATTTTAATGAATGAA
743755 GTGCTTCCCT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
16 1 0.03
17 28 0.97
ACGTcount: A:0.44, C:0.02, G:0.12, T:0.42
Consensus pattern (16 bp):
TATTTTAATGAATGAA
Found at i:760161 original size:17 final size:17
Alignment explanation
Indices: 760139--760188 Score: 82
Period size: 17 Copynumber: 2.9 Consensus size: 17
760129 TAAGATTTAA
760139 TTTAATAAATGAACTAT
1 TTTAATAAATGAACTAT
*
760156 TTTAATGAATGAACTAT
1 TTTAATAAATGAACTAT
*
760173 TTTAATTAATGAACTA
1 TTTAATAAATGAACTA
760189 CTTCCCCAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.44, C:0.06, G:0.08, T:0.42
Consensus pattern (17 bp):
TTTAATAAATGAACTAT
Found at i:763655 original size:17 final size:17
Alignment explanation
Indices: 763626--763675 Score: 73
Period size: 17 Copynumber: 2.9 Consensus size: 17
763616 AAAGAATTAA
*
763626 TTTAATAAATGAACTAG
1 TTTAATGAATGAACTAG
* *
763643 TTTGATGAATGAACTAT
1 TTTAATGAATGAACTAG
763660 TTTAATGAATGAACTA
1 TTTAATGAATGAACTA
763676 CTTCCCTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.42, C:0.06, G:0.14, T:0.38
Consensus pattern (17 bp):
TTTAATGAATGAACTAG
Found at i:772662 original size:27 final size:25
Alignment explanation
Indices: 772612--772659 Score: 80
Period size: 25 Copynumber: 1.9 Consensus size: 25
772602 AACCCAATTT
772612 TTCTTTTTTTTTATTTATATTTTCA
1 TTCTTTTTTTTTATTTATATTTTCA
772637 TTCTTTTTATTTTATTT-TATTTT
1 TTCTTTTT-TTTTATTTATATTTT
772660 TTCCTTGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 14 0.64
26 8 0.36
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (25 bp):
TTCTTTTTTTTTATTTATATTTTCA
Found at i:788675 original size:39 final size:41
Alignment explanation
Indices: 788632--788784 Score: 110
Period size: 39 Copynumber: 3.8 Consensus size: 41
788622 GTAAAGGCTG
788632 ACCCTATGCACAAAG-CAGAGGAGCCT-GCAGTAAGGACTT
1 ACCCTATGCACAAAGTCAGAGGAGCCTAGCAGTAAGGACTT
* **
788671 ACCCTGA-GCAC-AAGTCTGAAAAGCCTAG-AGTAAGGACTT
1 ACCCT-ATGCACAAAGTCAGAGGAGCCTAGCAGTAAGGACTT
* *
788710 ACCCTAAGCACAAAGTC-GTA-GAGCCTAAGAAAAGCAGTAAGGTCTT
1 ACCCTATGCACAAAGTCAG-AGGAGCCT------AGCAGTAAGGACTT
*
788756 ACCCT-TGCACATAG-CAGAGGAGCCT-GCAG
1 ACCCTATGCACAAAGTCAGAGGAGCCTAGCAG
788785 AAACGGTAAG
Statistics
Matches: 92, Mismatches: 7, Indels: 31
0.71 0.05 0.24
Matches are distributed among these distances:
38 8 0.09
39 43 0.47
40 8 0.09
44 2 0.02
45 16 0.17
46 15 0.16
ACGTcount: A:0.35, C:0.25, G:0.24, T:0.16
Consensus pattern (41 bp):
ACCCTATGCACAAAGTCAGAGGAGCCTAGCAGTAAGGACTT
Found at i:788805 original size:44 final size:44
Alignment explanation
Indices: 788746--788856 Score: 161
Period size: 44 Copynumber: 2.5 Consensus size: 44
788736 AAGAAAAGCA
788746 GTAAGGTCTTACCCTTGCACATAGCA-GAGGAGCCTGCAGAAACG
1 GTAAGGTCTTACCCTTGCACATAG-ATGAGGAGCCTGCAGAAACG
* **
788790 GTAAGGTCTTGCCCTTGCACATAGATGAGGAGCCTGTTGAAACG
1 GTAAGGTCTTACCCTTGCACATAGATGAGGAGCCTGCAGAAACG
* *
788834 GTAAGGTGTTATCCTTGCACATA
1 GTAAGGTCTTACCCTTGCACATA
788857 ACATATGAGC
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
43 1 0.02
44 59 0.98
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (44 bp):
GTAAGGTCTTACCCTTGCACATAGATGAGGAGCCTGCAGAAACG
Found at i:788867 original size:44 final size:44
Alignment explanation
Indices: 788746--788889 Score: 155
Period size: 44 Copynumber: 3.3 Consensus size: 44
788736 AAGAAAAGCA
* *
788746 GTAAGGTCTTACCCTTGCACATAGCAGAGGAGCCTGCAGAAACG
1 GTAAGGTCTTACCCTTGCACATAACATAGGAGCCTGCAGAAACG
* * **
788790 GTAAGGTCTTGCCCTTGCACAT-AGATGAGGAGCCTGTTGAAACG
1 GTAAGGTCTTACCCTTGCACATAACAT-AGGAGCCTGCAGAAACG
* * * ** **
788834 GTAAGGTGTTATCCTTGCACATAACATATGAGCCTATAGAATTG
1 GTAAGGTCTTACCCTTGCACATAACATAGGAGCCTGCAGAAACG
788878 GTAAGGTCTTAC
1 GTAAGGTCTTAC
788890 AAGTCATAGA
Statistics
Matches: 81, Mismatches: 17, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
43 1 0.01
44 77 0.95
45 3 0.04
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (44 bp):
GTAAGGTCTTACCCTTGCACATAACATAGGAGCCTGCAGAAACG
Found at i:793098 original size:14 final size:14
Alignment explanation
Indices: 793079--793107 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
793069 GAGAACAAAA
793079 CCCCTCAAACTTCT
1 CCCCTCAAACTTCT
793093 CCCCTCAAACTTCT
1 CCCCTCAAACTTCT
793107 C
1 C
793108 GTCGTGAATC
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:0.21, C:0.52, G:0.00, T:0.28
Consensus pattern (14 bp):
CCCCTCAAACTTCT
Found at i:794063 original size:59 final size:59
Alignment explanation
Indices: 794000--794117 Score: 227
Period size: 59 Copynumber: 2.0 Consensus size: 59
793990 TTACAAGTTC
794000 TAGAATTAAGTGATAAAGGAATCTGCCCTGGATATATAAATTATAAATATCCTTGTTAA
1 TAGAATTAAGTGATAAAGGAATCTGCCCTGGATATATAAATTATAAATATCCTTGTTAA
*
794059 TAGAATTAAGTGATAAAGGAATCTGCCCTGGATATATAAATTATAATTATCCTTGTTAA
1 TAGAATTAAGTGATAAAGGAATCTGCCCTGGATATATAAATTATAAATATCCTTGTTAA
794118 GATCTTTAAT
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (59 bp):
TAGAATTAAGTGATAAAGGAATCTGCCCTGGATATATAAATTATAAATATCCTTGTTAA
Found at i:796941 original size:27 final size:27
Alignment explanation
Indices: 796882--796942 Score: 104
Period size: 27 Copynumber: 2.3 Consensus size: 27
796872 TTTTATTTAT
* *
796882 ACATACTGATAAATCATTTTATGAGTT
1 ACATATTGATAAATCATTTTATGAGTA
796909 ACATATTGATAAATCATTTTATGAGTA
1 ACATATTGATAAATCATTTTATGAGTA
796936 ACATATT
1 ACATATT
796943 TTAACAAAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41
Consensus pattern (27 bp):
ACATATTGATAAATCATTTTATGAGTA
Found at i:798461 original size:20 final size:20
Alignment explanation
Indices: 798424--798461 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
798414 ACCCGCATTG
*
798424 ACCGTTGATCGACCTTGAAT
1 ACCGTTGATCCACCTTGAAT
798444 ACCGTTGA-CCACCGTTGA
1 ACCGTTGATCCACC-TTGA
798462 TCGGCCGTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (20 bp):
ACCGTTGATCCACCTTGAAT
Found at i:801969 original size:17 final size:16
Alignment explanation
Indices: 801937--801974 Score: 58
Period size: 17 Copynumber: 2.3 Consensus size: 16
801927 CCCAATGATT
*
801937 ATATTTATATATATAC
1 ATATTTATAAATATAC
801953 ATATTTATTAAATATAC
1 ATATTTA-TAAATATAC
801970 ATATT
1 ATATT
801975 CTCTCTAGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (16 bp):
ATATTTATAAATATAC
Found at i:806260 original size:44 final size:44
Alignment explanation
Indices: 806204--806333 Score: 206
Period size: 44 Copynumber: 3.0 Consensus size: 44
806194 GCAGAAAGAT
* * *
806204 GTAAGGTATTACCCTTGCACATAGCAAAGGAGCCTTCATAAATG
1 GTAAGGTCTTACCCTTACACATAGCAAAGGAGCCTTCAGAAATG
* *
806248 GTAAGGTCTTACCCTTTCATATAGCAAAGGAGCCTTCAGAAATG
1 GTAAGGTCTTACCCTTACACATAGCAAAGGAGCCTTCAGAAATG
*
806292 GTAAGGTCTTACCCTTACACATAGCGAAGGAGCCTTCAGAAA
1 GTAAGGTCTTACCCTTACACATAGCAAAGGAGCCTTCAGAAA
806334 CTTCCTCTAC
Statistics
Matches: 79, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 79 1.00
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.25
Consensus pattern (44 bp):
GTAAGGTCTTACCCTTACACATAGCAAAGGAGCCTTCAGAAATG
Found at i:807189 original size:15 final size:16
Alignment explanation
Indices: 807163--807192 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
807153 TCGACTCATA
807163 TCAAATTAGTCCACTT
1 TCAAATTAGTCCACTT
807179 TCAAA-TAGTCCACT
1 TCAAATTAGTCCACT
807193 AGGCAGTGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.33, C:0.27, G:0.07, T:0.33
Consensus pattern (16 bp):
TCAAATTAGTCCACTT
Found at i:808427 original size:24 final size:24
Alignment explanation
Indices: 808400--808451 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
808390 AACGGATATA
808400 TCAAAAATCAAAACATAAAT-CAGG
1 TCAAAAATCAAAACA-AAATCCAGG
** *
808424 TCAAGTATCATAACAAAATCCAGG
1 TCAAAAATCAAAACAAAATCCAGG
808448 TCAA
1 TCAA
808452 GTATCATATC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 4 0.17
24 20 0.83
ACGTcount: A:0.52, C:0.19, G:0.10, T:0.19
Consensus pattern (24 bp):
TCAAAAATCAAAACAAAATCCAGG
Found at i:808435 original size:19 final size:20
Alignment explanation
Indices: 808413--808459 Score: 51
Period size: 24 Copynumber: 2.2 Consensus size: 20
808403 AAAATCAAAA
808413 CATAAAT-CAGGTCAAGTAT
1 CATAAATCCAGGTCAAGTAT
808432 CATAACAAAATCCAGGTCAAGTAT
1 CAT----AAATCCAGGTCAAGTAT
808456 CATA
1 CATA
808460 TCAGAATCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 9
0.72 0.00 0.28
Matches are distributed among these distances:
19 3 0.13
20 1 0.04
23 4 0.17
24 15 0.65
ACGTcount: A:0.45, C:0.19, G:0.13, T:0.23
Consensus pattern (20 bp):
CATAAATCCAGGTCAAGTAT
Found at i:808452 original size:24 final size:24
Alignment explanation
Indices: 808420--808538 Score: 141
Period size: 24 Copynumber: 5.0 Consensus size: 24
808410 AAACATAAAT
* *
808420 CAGGTCAAGTATCATAACAAAATC
1 CAGGTCAAGTATCATATCAGAATC
808444 CAGGTCAAGTATCATATCAGAATC
1 CAGGTCAAGTATCATATCAGAATC
* * *
808468 CAAGTCAAGTATTACATCAGAATC
1 CAGGTCAAGTATCATATCAGAATC
* *
808492 CATGTC-AGATATCAGATCAGAATC
1 CAGGTCAAG-TATCATATCAGAATC
* *
808516 CATGTCAAGTATCAAATCAGAAT
1 CAGGTCAAGTATCATATCAGAAT
808539 TCAAATCGAA
Statistics
Matches: 84, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
23 2 0.02
24 80 0.95
25 2 0.02
ACGTcount: A:0.41, C:0.20, G:0.14, T:0.24
Consensus pattern (24 bp):
CAGGTCAAGTATCATATCAGAATC
Found at i:810989 original size:18 final size:18
Alignment explanation
Indices: 810961--811011 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
810951 ATCAACGGGT
* *
810961 CGGGTCAGGTCGGGTGAA
1 CGGGTCGGGTCGGGTAAA
*
810979 TGGGTCGGGTCGGGTAAA
1 CGGGTCGGGTCGGGTAAA
*
810997 CGGGTCGGCTCGGGT
1 CGGGTCGGGTCGGGT
811012 TGTAACCGGT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.12, C:0.18, G:0.51, T:0.20
Consensus pattern (18 bp):
CGGGTCGGGTCGGGTAAA
Found at i:815677 original size:19 final size:18
Alignment explanation
Indices: 815653--815688 Score: 63
Period size: 18 Copynumber: 1.9 Consensus size: 18
815643 ATTTTCCTTT
815653 TTTTCAATTTTTATTTTTA
1 TTTTCAA-TTTTATTTTTA
815672 TTTTCAATTTTATTTTT
1 TTTTCAATTTTATTTTT
815689 CTGATTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (18 bp):
TTTTCAATTTTATTTTTA
Found at i:818390 original size:18 final size:18
Alignment explanation
Indices: 818367--818411 Score: 74
Period size: 18 Copynumber: 2.5 Consensus size: 18
818357 CTTTAATTTG
818367 TTTATTTAATTATTT-TCT
1 TTTATTTAATT-TTTATCT
818385 TTTATTTAATTTTTATCT
1 TTTATTTAATTTTTATCT
818403 TTTATTTAA
1 TTTATTTAA
818412 AAAAAACTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
17 3 0.12
18 23 0.88
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTATTTAATTTTTATCT
Found at i:818467 original size:15 final size:15
Alignment explanation
Indices: 818449--818508 Score: 54
Period size: 15 Copynumber: 4.1 Consensus size: 15
818439 TCTTTACTAC
818449 TATTA-TTTATTATTT
1 TATTATTTTATTA-TT
*
818464 TATTATTTTCCTT-TT
1 TATTATTTT-ATTATT
*
818479 TATT-TATTATTATT
1 TATTATTTTATTATT
*
818493 TATTTTTTTATTATT
1 TATTATTTTATTATT
818508 T
1 T
818509 TTTTAAAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
13 2 0.05
14 9 0.24
15 21 0.57
16 3 0.08
17 2 0.05
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (15 bp):
TATTATTTTATTATT
Found at i:823966 original size:14 final size:15
Alignment explanation
Indices: 823934--823968 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
823924 ATCCCTGAAC
823934 TTTTTGATAATATAT
1 TTTTTGATAATATAT
* *
823949 TTTTTGTTATTATAT
1 TTTTTGATAATATAT
823964 TTTTT
1 TTTTT
823969 TTTTTGAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (15 bp):
TTTTTGATAATATAT
Found at i:824339 original size:135 final size:137
Alignment explanation
Indices: 824194--824453 Score: 348
Period size: 137 Copynumber: 1.9 Consensus size: 137
824184 TTTACAAAAC
* *
824194 TTGTCACTATATAACATTTGTT-CAC-CAAAAA-AGGAGAGAAATATTTCTAATAGTATAAGTTC
1 TTGTCACTATATAACATTTGTTACACTAAAAAATAGG-GAGAAATAGTTCTAATAGTATAAGTTC
824256 TCATAATGATTAAAATATAAAACTACAAAAATAATTAATT-AAAAAACTTAAATTTTATTAATTA
65 TCATAATGATTAAAATATAAAACTAC-AAAATAATTAATTAAAAAAACTTAAATTTTATTAATTA
824320 CTATATATT
129 CTATATATT
* * * * * * *
824329 TTGTTACTATATAACATTTTTTACACTAAAAAATAGGGAGAAATGGTTCTGATATTATAATTTTT
1 TTGTCACTATATAACATTTGTTACACTAAAAAATAGGGAGAAATAGTTCTAATAGTATAAGTTCT
* * * *
824394 CATAATGATTAAAATATATAAGTACAAAATAATTTATTACAAAAAACTTGAATTTTATTA
66 CATAATGATTAAAATATAAAACTACAAAATAATTAATTA-AAAAAACTTAAATTTTATTA
824454 TTAGATGTGA
Statistics
Matches: 107, Mismatches: 13, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
135 20 0.19
136 15 0.14
137 50 0.47
138 22 0.21
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (137 bp):
TTGTCACTATATAACATTTGTTACACTAAAAAATAGGGAGAAATAGTTCTAATAGTATAAGTTCT
CATAATGATTAAAATATAAAACTACAAAATAATTAATTAAAAAAACTTAAATTTTATTAATTACT
ATATATT
Found at i:825264 original size:15 final size:15
Alignment explanation
Indices: 825246--825277 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
825236 CTACTAATAG
*
825246 TGACAAAATTAATTT
1 TGACAAAATTAAATT
825261 TGACAAAATTAAATT
1 TGACAAAATTAAATT
825276 TG
1 TG
825278 TCCTAGTAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.06, G:0.09, T:0.38
Consensus pattern (15 bp):
TGACAAAATTAAATT
Found at i:825366 original size:41 final size:41
Alignment explanation
Indices: 825309--825390 Score: 137
Period size: 41 Copynumber: 2.0 Consensus size: 41
825299 GTAGTGAGTG
* *
825309 CTGAACATTCATACACGAGTGTACCAAAGCTGAACTGATAA
1 CTGAACATTCATACACGAATGTACCAAAGATGAACTGATAA
*
825350 CTGAACATTGATACACGAATGTACCAAAGATGAACTGATAA
1 CTGAACATTCATACACGAATGTACCAAAGATGAACTGATAA
825391 GTACTCTCTT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (41 bp):
CTGAACATTCATACACGAATGTACCAAAGATGAACTGATAA
Found at i:828726 original size:17 final size:17
Alignment explanation
Indices: 828701--828741 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
828691 AGTTCATATG
828701 TTCAACTTCAAATTACA
1 TTCAACTTCAAATTACA
*
828718 TTCATCTTCAAATTACA
1 TTCAACTTCAAATTACA
*
828735 TTTAACT
1 TTCAACT
828742 ATTGGAGACT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (17 bp):
TTCAACTTCAAATTACA
Found at i:830551 original size:24 final size:25
Alignment explanation
Indices: 830524--830574 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 25
830514 AATATATTAG
830524 TATTTTAA-AATAATTAA-AATAATA
1 TATTTTAATAATAA-TAATAATAATA
*
830548 TA-TTTAATAATAATAATATTAATA
1 TATTTTAATAATAATAATAATAATA
830572 TAT
1 TAT
830575 CTATAATCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
23 8 0.35
24 15 0.65
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (25 bp):
TATTTTAATAATAATAATAATAATA
Found at i:838927 original size:30 final size:30
Alignment explanation
Indices: 838888--838952 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
838878 AAAAATGGTT
* * *
838888 AAATTTTAACTTGACCTCT-AAATTTAGACA
1 AAATATTAACTTGAACT-TAAAATTTACACA
838918 AAATATTAACTTGAACTTAAAATTTACACA
1 AAATATTAACTTGAACTTAAAATTTACACA
838948 AAATA
1 AAATA
838953 CTAATCTAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
29 1 0.03
30 30 0.97
ACGTcount: A:0.48, C:0.14, G:0.05, T:0.34
Consensus pattern (30 bp):
AAATATTAACTTGAACTTAAAATTTACACA
Found at i:843596 original size:18 final size:18
Alignment explanation
Indices: 843573--843607 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
843563 CAACCCCTCC
843573 ACAAGTGCCACCCCTAAT
1 ACAAGTGCCACCCCTAAT
843591 ACAAGTGCCACCCCTAA
1 ACAAGTGCCACCCCTAA
843608 AAAGTGTCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.34, C:0.40, G:0.11, T:0.14
Consensus pattern (18 bp):
ACAAGTGCCACCCCTAAT
Found at i:844842 original size:20 final size:22
Alignment explanation
Indices: 844805--844844 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
844795 TCAATGTAAG
*
844805 TTTTAAAATTGATTTTTAAGCA
1 TTTTAAAATTGATATTTAAGCA
844827 TTTT-AAATT-ATATTTAAG
1 TTTTAAAATTGATATTTAAG
844845 GTTAAGCCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 5 0.29
22 4 0.24
ACGTcount: A:0.38, C:0.03, G:0.07, T:0.53
Consensus pattern (22 bp):
TTTTAAAATTGATATTTAAGCA
Found at i:851310 original size:24 final size:25
Alignment explanation
Indices: 851264--851315 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 25
851254 TTAATTTATG
*
851264 TTTTTATAATATAATATTATAA-TA
1 TTTTTAAAATATAATATTATAATTA
*
851288 TTTTTAAAATATTAT-TTAGTAATTA
1 TTTTTAAAATATAATATTA-TAATTA
851313 TTT
1 TTT
851316 ATATTAAGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 3 0.12
24 16 0.67
25 5 0.21
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (25 bp):
TTTTTAAAATATAATATTATAATTA
Found at i:862386 original size:3 final size:3
Alignment explanation
Indices: 862378--862459 Score: 92
Period size: 3 Copynumber: 26.7 Consensus size: 3
862368 ATGTTATTTA
* * * *
862378 TAT TAT TAT TAA TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT AAA TAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
862426 TAT TAT TAT TAA TAT ATAT TATT TAT TAA TAT TA
1 TAT TAT TAT TAT TAT -TAT TA-T TAT TAT TAT TA
862460 CAAAACCCAA
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
3 60 0.91
4 6 0.09
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:867860 original size:15 final size:15
Alignment explanation
Indices: 867842--867874 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
867832 CAATACTTTT
867842 TTTTGCATACATGCA
1 TTTTGCATACATGCA
*
867857 TTTTGCATACATTCA
1 TTTTGCATACATGCA
867872 TTT
1 TTT
867875 CATGATTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.24, C:0.18, G:0.09, T:0.48
Consensus pattern (15 bp):
TTTTGCATACATGCA
Found at i:871714 original size:113 final size:113
Alignment explanation
Indices: 871516--872035 Score: 808
Period size: 113 Copynumber: 4.6 Consensus size: 113
871506 GTAAAGATTT
*
871516 AAATCCATCA-TTCAATGGATCAGCTTTTCCAGTTCAAGTTCATAATGAGAAGAACTCATCTGAA
1 AAATCCATCACTT-GATGGATCAGCTTTTCCAGTTCAAGTTCATAATGAGAAGAACTCATCTGAA
871580 GAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTTAACCTTTTGCTC
65 GAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTTAACCTTTTGCTC
* * *
871629 AAATCCATCACTTGATGGATCATCTTTTCCAGTTCTAGTTCATAATAAGAAGAACTCATCTGAAG
1 AAATCCATCACTTGATGGATCAGCTTTTCCAGTTCAAGTTCATAATGAGAAGAACTCATCTGAAG
* *
871694 AAGGAAGAAGAAGTTCATAATGAGAATAATTTGTTCAACCTTTTGCTC
66 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTTAACCTTTTGCTC
* * *
871742 AAATCCATCACTTGATGGATTAGCTTTTCCAGTTCGAGTTCATAATGAGAATAACTCATCTGAAG
1 AAATCCATCACTTGATGGATCAGCTTTTCCAGTTCAAGTTCATAATGAGAAGAACTCATCTGAAG
* *
871807 AATGAAGAAGAAGTTCATAATGAGAAGAATTTGTTTAACTTTTTGCTC
66 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTTAACCTTTTGCTC
*
871855 AAATCCATCACTTGATGGATCAGCTTTTCCAGTTCAAGTTCATAATGAGAAGAACTCCTCTGAAG
1 AAATCCATCACTTGATGGATCAGCTTTTCCAGTTCAAGTTCATAATGAGAAGAACTCATCTGAAG
** * *
871920 AAGGAAGAAGAAGTTTGTAATGAGAAGAACTTGTTTAACCTTTTGTTC
66 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTTAACCTTTTGCTC
* * * * * ***
871968 AAATTCATCACTTAATGGATCAACCTTTACAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCCATCACTTGATGGATCAGCTTTTCCAGTTCAAGTTCATAATGAGAAGAACTCATCTGAAG
872033 AAG
66 AAG
872036 AATAAGTTCA
Statistics
Matches: 372, Mismatches: 34, Indels: 2
0.91 0.08 0.00
Matches are distributed among these distances:
113 370 0.99
114 2 0.01
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (113 bp):
AAATCCATCACTTGATGGATCAGCTTTTCCAGTTCAAGTTCATAATGAGAAGAACTCATCTGAAG
AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTTAACCTTTTGCTC
Found at i:872306 original size:3 final size:3
Alignment explanation
Indices: 872298--872376 Score: 106
Period size: 3 Copynumber: 26.0 Consensus size: 3
872288 TAAATGTTAT
*
872298 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTTA TTA TAA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
* *
872344 TTA TTA TTA TTA ATA -TA TTA TTTA TTA ATA TTA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA
872377 CAAAACCCAG
Statistics
Matches: 68, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
2 2 0.03
3 60 0.88
4 6 0.09
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:874682 original size:36 final size:36
Alignment explanation
Indices: 874633--874772 Score: 203
Period size: 36 Copynumber: 3.9 Consensus size: 36
874623 TATTTCTATT
* *
874633 CAAATCAACCCTTCACAAAATAGTAGTGAAGCAATG
1 CAAATCAAGCCTTCACAAAAGAGTAGTGAAGCAATG
874669 CAAATCAAGCCTTCACAAAAGAGTAGTGAAGCAAATG
1 CAAATCAAGCCTTCACAAAAGAGTAGTGAAGC-AATG
* * *
874706 C-AATCAAGACTTTACAAAAGAGTAGTGAAGAAATG
1 CAAATCAAGCCTTCACAAAAGAGTAGTGAAGCAATG
*
874741 CAATTC-AGCCTTCACAAAAGAGTAGTGAAGCA
1 CAAATCAAGCCTTCACAAAAGAGTAGTGAAGCA
874773 TAAATAGATC
Statistics
Matches: 93, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
35 28 0.30
36 60 0.65
37 5 0.05
ACGTcount: A:0.45, C:0.19, G:0.18, T:0.19
Consensus pattern (36 bp):
CAAATCAAGCCTTCACAAAAGAGTAGTGAAGCAATG
Found at i:876298 original size:18 final size:19
Alignment explanation
Indices: 876277--876313 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
876267 TGTTTTAATC
876277 ATTAATTATTATTA-TATT
1 ATTAATTATTATTAGTATT
876295 ATTAATTATTATTAGTATT
1 ATTAATTATTATTAGTATT
876314 TATACTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (19 bp):
ATTAATTATTATTAGTATT
Found at i:878102 original size:2 final size:2
Alignment explanation
Indices: 878095--878144 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
878085 ATGCATGTGG
878095 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
878137 AT AT AT AT
1 AT AT AT AT
878145 TATTAGGGGT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:878410 original size:23 final size:23
Alignment explanation
Indices: 878384--878440 Score: 105
Period size: 23 Copynumber: 2.5 Consensus size: 23
878374 TTTAAGTCGC
878384 GGGTTGGGTTTTGGTCTTTAGGG
1 GGGTTGGGTTTTGGTCTTTAGGG
878407 GGGTTGGGTTTTGGTCTTTAGGG
1 GGGTTGGGTTTTGGTCTTTAGGG
*
878430 GAGTTGGGTTT
1 GGGTTGGGTTT
878441 AGGAACTCTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.05, C:0.04, G:0.47, T:0.44
Consensus pattern (23 bp):
GGGTTGGGTTTTGGTCTTTAGGG
Found at i:879109 original size:4 final size:4
Alignment explanation
Indices: 879100--879283 Score: 215
Period size: 4 Copynumber: 46.0 Consensus size: 4
879090 ATCTATGTTC
* * *
879100 ATAT ATAT ATAT ATAT ATAT ACAT GTAT ATAT ATAT ATAT ATAT ACAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
* * * * * *
879148 ACAT GTAT ATAT ATAT ATAT ATAT ATAT ACAT GTAT GTAT ATAT ATGT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
* * *
879196 ATAT ATAT ATAT ACAT ACAT GTAT ATAT ATAT ATAT ATAT ATAT ATAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
* * * * *
879244 ACAT GTAT GTAT ATAT ATAT ATAC ATGT ATAT ATAT ATAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
879284 TTAAGACTTT
Statistics
Matches: 154, Mismatches: 26, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
4 154 1.00
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.46
Consensus pattern (4 bp):
ATAT
Found at i:879131 original size:28 final size:28
Alignment explanation
Indices: 879100--879283 Score: 242
Period size: 28 Copynumber: 6.4 Consensus size: 28
879090 ATCTATGTTC
879100 ATATATATATATATATATATACATGTAT
1 ATATATATATATATATATATACATGTAT
*
879128 ATATATATATATATATACATACATGTAT
1 ATATATATATATATATATATACATGTAT
879156 ATATATATATATATATATATACATGTATGT
1 ATATATATATATATATATATACATGTA--T
* *
879186 ATATATATGTATATATATATATACATACATGT
1 ATATATA--TATATATATATATACAT--GTAT
* * *
879218 ATATATATATATATATATATATATATAC
1 ATATATATATATATATATATACATGTAT
* *
879246 ATGTATGTATATATATATATACATGTAT
1 ATATATATATATATATATATACATGTAT
879274 ATATATATAT
1 ATATATATAT
879284 TTAAGACTTT
Statistics
Matches: 136, Mismatches: 14, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
28 86 0.63
30 24 0.18
32 25 0.18
34 1 0.01
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.46
Consensus pattern (28 bp):
ATATATATATATATATATATACATGTAT
Found at i:879141 original size:32 final size:32
Alignment explanation
Indices: 879100--879266 Score: 252
Period size: 32 Copynumber: 5.3 Consensus size: 32
879090 ATCTATGTTC
*
879100 ATATATATATATATATATATACATG--TATA-
1 ATATATATATATATATACATACATGTATATAT
879129 -TATATATATATATATACATACATGTATATAT
1 ATATATATATATATATACATACATGTATATAT
**
879160 ATATATATATATATATACATGTATGTATATAT
1 ATATATATATATATATACATACATGTATATAT
*
879192 ATGTATATATATATATACATACATGTATATAT
1 ATATATATATATATATACATACATGTATATAT
* *
879224 ATATATATATATATATATATACATGTATGTAT
1 ATATATATATATATATACATACATGTATATAT
879256 ATATATATATA
1 ATATATATATA
879267 CATGTATATA
Statistics
Matches: 125, Mismatches: 9, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
28 23 0.18
30 4 0.03
32 98 0.78
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.46
Consensus pattern (32 bp):
ATATATATATATATATACATACATGTATATAT
Found at i:880520 original size:15 final size:14
Alignment explanation
Indices: 880502--880540 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
880492 TGATTTGTTT
880502 GTTAATTAGTTTCAG
1 GTTAATT-GTTTCAG
880517 GTTAAATTGTTTCAG
1 GTT-AATTGTTTCAG
*
880532 ATTAATTGT
1 GTTAATTGT
880541 GCTTGTGTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 6 0.27
15 12 0.55
16 4 0.18
ACGTcount: A:0.28, C:0.05, G:0.18, T:0.49
Consensus pattern (14 bp):
GTTAATTGTTTCAG
Found at i:882493 original size:19 final size:19
Alignment explanation
Indices: 882468--882514 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
882458 ATTTTGTATA
882468 TGCATTTTACTTTTCGCAC
1 TGCATTTTACTTTTCGCAC
* *
882487 TGTATTTTACTTTTCGCAT
1 TGCATTTTACTTTTCGCAC
882506 TGCATTTTA
1 TGCATTTTA
882515 TTAATTCATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.17, C:0.19, G:0.11, T:0.53
Consensus pattern (19 bp):
TGCATTTTACTTTTCGCAC
Found at i:883008 original size:21 final size:21
Alignment explanation
Indices: 882984--883031 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
882974 GACAAGTTCA
882984 AGAAAAAAAAACAACTAGAGG
1 AGAAAAAAAAACAACTAGAGG
****
883005 AGAAGTGGAAACAACTAGAGG
1 AGAAAAAAAAACAACTAGAGG
883026 -GAAAAA
1 AGAAAAA
883032 TTAGGGCTAT
Statistics
Matches: 20, Mismatches: 7, Indels: 1
0.71 0.25 0.04
Matches are distributed among these distances:
20 3 0.15
21 17 0.85
ACGTcount: A:0.60, C:0.08, G:0.25, T:0.06
Consensus pattern (21 bp):
AGAAAAAAAAACAACTAGAGG
Found at i:889682 original size:14 final size:14
Alignment explanation
Indices: 889655--889713 Score: 50
Period size: 14 Copynumber: 4.1 Consensus size: 14
889645 AATAATGAAA
* *
889655 AAGAAATAATGAAG
1 AAGAAAAAAAGAAG
889669 AA-AAATAAAAGAAG
1 AAGAAA-AAAAGAAG
889683 AAGAAAAAAAGAA-
1 AAGAAAAAAAGAAG
*
889696 AAGGAGAAAAAAAAAG
1 AA-GA-AAAAAAGAAG
889712 AA
1 AA
889714 AATGAATAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
13 5 0.14
14 19 0.51
15 11 0.30
16 2 0.05
ACGTcount: A:0.76, C:0.00, G:0.19, T:0.05
Consensus pattern (14 bp):
AAGAAAAAAAGAAG
Found at i:889685 original size:17 final size:16
Alignment explanation
Indices: 889651--889713 Score: 65
Period size: 17 Copynumber: 3.8 Consensus size: 16
889641 CCTAAATAAT
* *
889651 GAAAAAGAAATAATGAA
1 GAAAAAAAAAGAA-GAA
889668 GAAAAATAAAAGAAGAA
1 GAAAAA-AAAAGAAGAA
*
889685 GAAAAAAAGAA-AAGGA
1 GAAAAAAA-AAGAAGAA
889701 GAAAAAAAAAGAA
1 GAAAAAAAAAGAA
889714 AATGAATAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
15 2 0.05
16 16 0.40
17 17 0.43
18 5 0.12
ACGTcount: A:0.76, C:0.00, G:0.19, T:0.05
Consensus pattern (16 bp):
GAAAAAAAAAGAAGAA
Found at i:889724 original size:18 final size:18
Alignment explanation
Indices: 889669--889715 Score: 67
Period size: 19 Copynumber: 2.6 Consensus size: 18
889659 AATAATGAAG
* *
889669 AAAAATAAAAGAAGAAGAA
1 AAAAAGAAAAGGAGAA-AA
889688 AAAAAGAAAAGGAGAAAA
1 AAAAAGAAAAGGAGAAAA
889706 AAAAAGAAAA
1 AAAAAGAAAA
889716 TGAATAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 12 0.46
19 14 0.54
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (18 bp):
AAAAAGAAAAGGAGAAAA
Found at i:891317 original size:46 final size:46
Alignment explanation
Indices: 891262--891509 Score: 302
Period size: 46 Copynumber: 5.4 Consensus size: 46
891252 TAATGTACCA
* *
891262 TTATGCATTTTCATTTGTGACATCCTTTCATGCCAATAATGCACTG
1 TTATGCATTTTCATTTATGACATCCTTTCATGCCGATAATGCACTG
* * * *
891308 TTATTCATTTTCATTTATGGCATCTTTTCATGTCGATAATGCACTG
1 TTATGCATTTTCATTTATGACATCCTTTCATGCCGATAATGCACTG
* * * *
891354 TTATGTATTTTCATTTATGTCATCCTTTCATGCCAATAATGCACCG
1 TTATGCATTTTCATTTATGACATCCTTTCATGCCGATAATGCACTG
*
891400 TTATGCATCTTCATTTATGGA-ATCCTTTCATGCCGATAATGCAAC-G
1 TTATGCATTTTCATTTAT-GACATCCTTTCATGCCGATAATGC-ACTG
* * *** * *
891446 TTATGCATTTTTATTTGTGGTGTCCTTTCATGCCGATAATGTATTG
1 TTATGCATTTTCATTTATGACATCCTTTCATGCCGATAATGCACTG
891492 TTATGCATTTTCATTTAT
1 TTATGCATTTTCATTTAT
891510 TCATTCATTT
Statistics
Matches: 172, Mismatches: 26, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
45 2 0.01
46 167 0.97
47 3 0.02
ACGTcount: A:0.23, C:0.19, G:0.14, T:0.45
Consensus pattern (46 bp):
TTATGCATTTTCATTTATGACATCCTTTCATGCCGATAATGCACTG
Found at i:891413 original size:92 final size:92
Alignment explanation
Indices: 891262--891509 Score: 338
Period size: 92 Copynumber: 2.7 Consensus size: 92
891252 TAATGTACCA
* *
891262 TTATGCATTTTCATTTGTGACATCCTTTCATGCCAATAATGCACTGTTATTCATTTTCATTTATG
1 TTATGCATTTTCATTTGTGTCATCCTTTCATGCCAATAATGCACTGTTATGCATTTTCATTTATG
* * *
891327 GCATCTTTTCATGTCGATAATGC-ACTG
66 GAATCCTTTCATGCCGATAATGCAAC-G
* * * *
891354 TTATGTATTTTCATTTATGTCATCCTTTCATGCCAATAATGCACCGTTATGCATCTTCATTTATG
1 TTATGCATTTTCATTTGTGTCATCCTTTCATGCCAATAATGCACTGTTATGCATTTTCATTTATG
891419 GAATCCTTTCATGCCGATAATGCAACG
66 GAATCCTTTCATGCCGATAATGCAACG
* * * * *
891446 TTATGCATTTTTATTTGTGGT-GTCCTTTCATGCCGATAATGTATTGTTATGCATTTTCATTTAT
1 TTATGCATTTTCATTTGT-GTCATCCTTTCATGCCAATAATGCACTGTTATGCATTTTCATTTAT
891510 TCATTCATTT
Statistics
Matches: 136, Mismatches: 18, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
92 132 0.97
93 4 0.03
ACGTcount: A:0.23, C:0.19, G:0.14, T:0.45
Consensus pattern (92 bp):
TTATGCATTTTCATTTGTGTCATCCTTTCATGCCAATAATGCACTGTTATGCATTTTCATTTATG
GAATCCTTTCATGCCGATAATGCAACG
Found at i:891494 original size:138 final size:137
Alignment explanation
Indices: 891252--891513 Score: 348
Period size: 138 Copynumber: 1.9 Consensus size: 137
891242 TTTATACCAT
* * * *
891252 TAATGTACCATTATGCATTTTCATTTGTGACATCCTTTCATGCCAATAATGCACTGTTATTCATT
1 TAATGCACCATTATGCATCTTCATTTATGACATCCTTTCATGCCAATAATGCACTGTTATGCATT
* * *
891317 TTCATTTATGGCATCTTTTCATGTCGATAATGCACTGTTATGTATTTTCATTTATGTCATCCTTT
66 TTCATTTATGGCATCCTTTCATGCCGATAATGCACTGTTATGCATTTTCATTTAT-TCATCCTTT
891382 CATGCCAA
130 CATGCCAA
* *
891390 TAATGCACCGTTATGCATCTTCATTTATGGA-ATCCTTTCATGCCGATAATGCAAC-GTTATGCA
1 TAATGCACCATTATGCATCTTCATTTAT-GACATCCTTTCATGCCAATAATGC-ACTGTTATGCA
* * ** * *
891453 TTTTTATTTGTGGTGTCCTTTCATGCCGATAATGTATTGTTATGCATTTTCATTTATTCAT
64 TTTTCATTTATGGCATCCTTTCATGCCGATAATGCACTGTTATGCATTTTCATTTATTCAT
891514 TCATTTTATA
Statistics
Matches: 107, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
137 4 0.04
138 99 0.93
139 4 0.04
ACGTcount: A:0.23, C:0.19, G:0.13, T:0.45
Consensus pattern (137 bp):
TAATGCACCATTATGCATCTTCATTTATGACATCCTTTCATGCCAATAATGCACTGTTATGCATT
TTCATTTATGGCATCCTTTCATGCCGATAATGCACTGTTATGCATTTTCATTTATTCATCCTTTC
ATGCCAA
Found at i:893908 original size:18 final size:19
Alignment explanation
Indices: 893885--893923 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
893875 TTCATTTGGG
*
893885 TTTATATATATTAA-GTTA
1 TTTATACATATTAATGTTA
*
893903 TTTATACATGTTAATGTTA
1 TTTATACATATTAATGTTA
893922 TT
1 TT
893924 AATTACACGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.33, C:0.03, G:0.08, T:0.56
Consensus pattern (19 bp):
TTTATACATATTAATGTTA
Found at i:897473 original size:55 final size:54
Alignment explanation
Indices: 897414--897871 Score: 531
Period size: 55 Copynumber: 8.3 Consensus size: 54
897404 GGGAGCATAG
* * * *
897414 GACTCGAACGATCTTCTACAATCATGTTTGTTCCCTATTTCTTCAGAGAGTATGA
1 GACTCGAAC-ATCTTCAATAATCATGTCTGCTCCCTATTTCTTCAGAGAGTATGA
* * * * *
897469 GACTCGAACAATCTTCAATAATCGTGTTTGTTCCATATTTCTTCAGAGAGTATAA
1 GACTCGAAC-ATCTTCAATAATCATGTCTGCTCCCTATTTCTTCAGAGAGTATGA
* * * *
897524 GACTCGAACAGTCTTCAATAATCCTGTCTGCTCCCTATTTATTCAAAGAGTATAA
1 GACTCGAACA-TCTTCAATAATCATGTCTGCTCCCTATTTCTTCAGAGAGTATGA
* * * *
897579 GACTCAAACAATTTTCAATAATCATGTCTGCTCTCTATTTCTTCAAAGAGTATGA
1 GACTCGAAC-ATCTTCAATAATCATGTCTGCTCCCTATTTCTTCAGAGAGTATGA
* * *
897634 GACTTGAACCATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATGA
1 GACTCGAA-CATCTTCAATAATCATGTCTGCTCCCTATTTCTTCAGAGAGTATGA
* * * *
897689 GACTCGAATAATTTTCAATAATCATGTATGCTCTCTATTTCTTCAGAGAGTATGA
1 GACTCGAA-CATCTTCAATAATCATGTCTGCTCCCTATTTCTTCAGAGAGTATGA
* *
897744 GACTCGAACCATCTTCAATAATCGTGTCTGCTCCTTATTTCTTCAGAGAGTATGA
1 GACTCGAA-CATCTTCAATAATCATGTCTGCTCCCTATTTCTTCAGAGAGTATGA
** * * * *
897799 GACTCGAACAATTCTTCAATAATTGTATATGCTCCCTATTTCTTTAGATAGTATG-
1 GACTCGAAC-A-TCTTCAATAATCATGTCTGCTCCCTATTTCTTCAGAGAGTATGA
897854 GAACTCGAACATCTTCAA
1 G-ACTCGAACATCTTCAA
897872 ACGGTTCCCC
Statistics
Matches: 351, Mismatches: 46, Indels: 13
0.86 0.11 0.03
Matches are distributed among these distances:
54 9 0.03
55 295 0.84
56 47 0.13
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.35
Consensus pattern (54 bp):
GACTCGAACATCTTCAATAATCATGTCTGCTCCCTATTTCTTCAGAGAGTATGA
Found at i:897561 original size:110 final size:109
Alignment explanation
Indices: 897414--897871 Score: 587
Period size: 110 Copynumber: 4.2 Consensus size: 109
897404 GGGAGCATAG
* * * *
897414 GACTCGAACGATCTTCTACAATCATGTTTGTTCCCTATTTCTTCAGAGAGTATGAGACTCGAACA
1 GACTCGAAC-ATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATGAGACTCGAACA
* * * *
897479 ATCTTCAATAATCGTGTTTGTTC-CATATTTCTTCAGAGAGTATAA
65 ATCTTCAATAATCATGTATGCTCTC-TATTTCTTCAGAGAGTATGA
* * * * * *
897524 GACTCGAACAGTCTTCAATAATCCTGTCTGCTCCCTATTTATTCAAAGAGTATAAGACTCAAACA
1 GACTCGAACA-TCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATGAGACTCGAACA
* * *
897589 ATTTTCAATAATCATGTCTGCTCTCTATTTCTTCAAAGAGTATGA
65 ATCTTCAATAATCATGTATGCTCTCTATTTCTTCAGAGAGTATGA
* *
897634 GACTTGAACCATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATGAGACTCGAATA
1 GACTCGAA-CATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATGAGACTCGAACA
*
897699 ATTTTCAATAATCATGTATGCTCTCTATTTCTTCAGAGAGTATGA
65 ATCTTCAATAATCATGTATGCTCTCTATTTCTTCAGAGAGTATGA
* *
897744 GACTCGAACCATCTTCAATAATCGTGTCTGCTCCTTATTTCTTCAGAGAGTATGAGACTCGAACA
1 GACTCGAA-CATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATGAGACTCGAACA
** * * * *
897809 ATTCTTCAATAATTGTATATGCTCCCTATTTCTTTAGATAGTATG-
65 A-TCTTCAATAATCATGTATGCTCTCTATTTCTTCAGAGAGTATGA
897854 GAACTCGAACATCTTCAA
1 G-ACTCGAACATCTTCAA
897872 ACGGTTCCCC
Statistics
Matches: 307, Mismatches: 36, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
109 1 0.00
110 260 0.85
111 46 0.15
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.35
Consensus pattern (109 bp):
GACTCGAACATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATGAGACTCGAACAA
TCTTCAATAATCATGTATGCTCTCTATTTCTTCAGAGAGTATGA
Found at i:897961 original size:54 final size:54
Alignment explanation
Indices: 897881--898019 Score: 260
Period size: 54 Copynumber: 2.6 Consensus size: 54
897871 AACGGTTCCC
* *
897881 CCCTATTTCTCTAGGGAGTATGGAACTCGAACATCTTTTTCTTACGGGTTCGCT
1 CCCTCTTTCTCTAGGGAGTATAGAACTCGAACATCTTTTTCTTACGGGTTCGCT
897935 CCCTCTTTCTCTAGGGAGTATAGAACTCGAACATCTTTTTCTTACGGGTTCGCT
1 CCCTCTTTCTCTAGGGAGTATAGAACTCGAACATCTTTTTCTTACGGGTTCGCT
897989 CCCTCTTTCTCTAGGGAGTATAGAACTCGAA
1 CCCTCTTTCTCTAGGGAGTATAGAACTCGAA
898020 TAATCTTCTT
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 83 1.00
ACGTcount: A:0.20, C:0.25, G:0.19, T:0.35
Consensus pattern (54 bp):
CCCTCTTTCTCTAGGGAGTATAGAACTCGAACATCTTTTTCTTACGGGTTCGCT
Found at i:897962 original size:103 final size:106
Alignment explanation
Indices: 897829--898019 Score: 253
Period size: 103 Copynumber: 1.8 Consensus size: 106
897819 AATTGTATAT
* * *
897829 GCTCCCTATTTCTTTAGATAGTATGGAACTCGAACATC-TTCAAAC-GGTTC-CCCCCTATTTCT
1 GCTCCCTATTTCTCTAGAGAGTATAGAACTCGAACATCTTTCAAACGGGTTCGCCCCCTATTTCT
*
897891 CTAGGGAGTATGGAACTCGAACATCTTTTTCTTACGGGTTC
66 CTAGGGAGTATAGAACTCGAACATCTTTTTCTTACGGGTTC
* * ** * *
897932 GCTCCCTCTTTCTCTAGGGAGTATAGAACTCGAACATCTTTTTCTTACGGGTTCGCTCCCTCTTT
1 GCTCCCTATTTCTCTAGAGAGTATAGAACTCGAACATC--TTTCAAACGGGTTCGCCCCCTATTT
897997 CTCTAGGGAGTATAGAACTCGAA
64 CTCTAGGGAGTATAGAACTCGAA
898020 TAATCTTCTT
Statistics
Matches: 73, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
103 33 0.45
106 5 0.07
107 5 0.07
108 30 0.41
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.35
Consensus pattern (106 bp):
GCTCCCTATTTCTCTAGAGAGTATAGAACTCGAACATCTTTCAAACGGGTTCGCCCCCTATTTCT
CTAGGGAGTATAGAACTCGAACATCTTTTTCTTACGGGTTC
Found at i:899340 original size:45 final size:45
Alignment explanation
Indices: 899273--899358 Score: 120
Period size: 45 Copynumber: 1.9 Consensus size: 45
899263 ATCTTAAAAC
* *
899273 TCAAGCCGCCCTTTGCGGGTTTTCAACTTGAGA-CCTCCTTTGGTT
1 TCAAGACGCCCTTTGCGAGTTTTCAACTTGA-ACCCTCCTTTGGTT
* *
899318 TCAAGACGCCCTTTTCGAGTTTTCATCTTGAACCCTCCTTT
1 TCAAGACGCCCTTTGCGAGTTTTCAACTTGAACCCTCCTTT
899359 TTTTGCATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
44 1 0.03
45 35 0.97
ACGTcount: A:0.15, C:0.30, G:0.17, T:0.37
Consensus pattern (45 bp):
TCAAGACGCCCTTTGCGAGTTTTCAACTTGAACCCTCCTTTGGTT
Found at i:906449 original size:21 final size:21
Alignment explanation
Indices: 906425--906476 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
906415 ATTATGAATG
906425 AATAAAATGCGGTGCAAGAAA-
1 AATAAAATGCGGTGCAA-AAAT
**
906446 AATAAAAATGCTTTGCAAAAAT
1 AAT-AAAATGCGGTGCAAAAAT
906468 AATAAAATG
1 AATAAAATG
906477 ATGCACATGC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 12 0.44
22 15 0.56
ACGTcount: A:0.56, C:0.08, G:0.15, T:0.21
Consensus pattern (21 bp):
AATAAAATGCGGTGCAAAAAT
Found at i:916277 original size:40 final size:40
Alignment explanation
Indices: 916233--916384 Score: 133
Period size: 40 Copynumber: 3.8 Consensus size: 40
916223 TAAGTCAAGG
*
916233 TGATGCTGATCCAACTCCTTATATGATGGACGAACAAAAA
1 TGATGCTGATCCAACTCCTTATGTGATGGACGAACAAAAA
* * * * ** * * * *
916273 TGATGTTAATACAACTACTTATGTGATTCATGAGCGAAAG
1 TGATGCTGATCCAACTCCTTATGTGATGGACGAACAAAAA
* * * ** *
916313 TGATACTGATCTAACTCCTTATGTGATGAACGAGTGAAATGA
1 TGATGCTGATCCAACTCCTTATGTGATGGACGA-ACAAA-AA
916355 TGATGCTGATCCAACTCCTTATGTGATGGA
1 TGATGCTGATCCAACTCCTTATGTGATGGA
916385 TAAGCCAAGG
Statistics
Matches: 82, Mismatches: 28, Indels: 2
0.73 0.25 0.02
Matches are distributed among these distances:
40 53 0.65
41 2 0.02
42 27 0.33
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.30
Consensus pattern (40 bp):
TGATGCTGATCCAACTCCTTATGTGATGGACGAACAAAAA
Found at i:916618 original size:39 final size:39
Alignment explanation
Indices: 916564--916664 Score: 168
Period size: 39 Copynumber: 2.6 Consensus size: 39
916554 GTTGAAAAAT
*
916564 TTCTTCACATTATGAACTTCTTCAACTTCATCGAAAGAG
1 TTCTTCTCATTATGAACTTCTTCAACTTCATCGAAAGAG
**
916603 TTCTTCTCATTATGAACTTCTTCTCCTTCATCGAAAGAG
1 TTCTTCTCATTATGAACTTCTTCAACTTCATCGAAAGAG
916642 TTCTTCTCATTATGAA-TTCTTCA
1 TTCTTCTCATTATGAACTTCTTCA
916665 CTGTAAATTT
Statistics
Matches: 58, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
38 6 0.10
39 52 0.90
ACGTcount: A:0.26, C:0.24, G:0.09, T:0.42
Consensus pattern (39 bp):
TTCTTCTCATTATGAACTTCTTCAACTTCATCGAAAGAG
Found at i:916645 original size:22 final size:22
Alignment explanation
Indices: 916589--916649 Score: 69
Period size: 17 Copynumber: 3.0 Consensus size: 22
916579 ACTTCTTCAA
916589 CTTCATCGAAAGAGTTCTTCTC
1 CTTCATCGAAAGAGTTCTTCTC
* *
916611 ATT-AT-G--A-ACTTCTTCTC
1 CTTCATCGAAAGAGTTCTTCTC
916628 CTTCATCGAAAGAGTTCTTCTC
1 CTTCATCGAAAGAGTTCTTCTC
916650 ATTATGAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 10
0.68 0.09 0.23
Matches are distributed among these distances:
17 11 0.37
18 3 0.10
19 1 0.03
20 1 0.03
21 3 0.10
22 11 0.37
ACGTcount: A:0.23, C:0.26, G:0.11, T:0.39
Consensus pattern (22 bp):
CTTCATCGAAAGAGTTCTTCTC
Found at i:919265 original size:25 final size:24
Alignment explanation
Indices: 919219--919268 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 24
919209 CAAGAGGTCT
919219 AGTTAATGGTTAACAATCAGGTCAA
1 AGTTAATGGTT-ACAATCAGGTCAA
919244 AGTTAATGGTT-CAAGTCAAGGTCAA
1 AGTTAATGGTTACAA-TC-AGGTCAA
919269 CGAGTTAGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 3 0.13
24 2 0.09
25 18 0.78
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.28
Consensus pattern (24 bp):
AGTTAATGGTTACAATCAGGTCAA
Found at i:923563 original size:22 final size:21
Alignment explanation
Indices: 923535--923576 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
923525 ATTTCTTCTT
*
923535 GTCAAAGTCAACATTCAAATTG
1 GTCAAAGTCAA-AGTCAAATTG
923557 GTCAAAGTCAAAGTCAAATT
1 GTCAAAGTCAAAGTCAAATT
923577 CAATGGGTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.43, C:0.17, G:0.14, T:0.26
Consensus pattern (21 bp):
GTCAAAGTCAAAGTCAAATTG
Found at i:928954 original size:28 final size:28
Alignment explanation
Indices: 928913--928975 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 28
928903 TATAGATGCT
*
928913 AATGCAAAGATGCAAAGATG-AACATGTA
1 AATGCAAAGATGCAAA-ATGCAAAATGTA
* *
928941 AATGTAAATATGCAAAATGCAAAATGTA
1 AATGCAAAGATGCAAAATGCAAAATGTA
928969 AATGCAA
1 AATGCAA
928976 CAAAGGAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 3 0.10
28 27 0.90
ACGTcount: A:0.52, C:0.10, G:0.17, T:0.21
Consensus pattern (28 bp):
AATGCAAAGATGCAAAATGCAAAATGTA
Found at i:931584 original size:20 final size:20
Alignment explanation
Indices: 931559--931601 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
931549 CATCCAAACA
*
931559 AAAATGAACAAAATTTAAAT
1 AAAATGAACAAAATATAAAT
**
931579 AAAATGGTCAAAATATAAAT
1 AAAATGAACAAAATATAAAT
931599 AAA
1 AAA
931602 CAAAAGCATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.65, C:0.05, G:0.07, T:0.23
Consensus pattern (20 bp):
AAAATGAACAAAATATAAAT
Found at i:936990 original size:2 final size:2
Alignment explanation
Indices: 936973--937041 Score: 106
Period size: 2 Copynumber: 35.5 Consensus size: 2
936963 GTGAGAATAC
*
936973 AT AT AT TT A- AT A- 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
*
937013 AT AT AT AT AT AT AT AT AT AT AT AA AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
937042 AATCATTGGG
Statistics
Matches: 61, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
1 2 0.03
2 59 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:939569 original size:133 final size:131
Alignment explanation
Indices: 939213--939583 Score: 415
Period size: 132 Copynumber: 2.8 Consensus size: 131
939203 GAATTTGATT
* * * ** *
939213 CACTTCGCTGCTTTTCAGGGAAGATTGAATCGAACTTGATTTGATTCACTACCCTTAAGGAAGAT
1 CACTTCACTGCTCTTCAGGGAAGATTGAATCGAACTTGATTTGCTTCACTACTATTAAGGAAGAC
* * *
939278 CAATTCTGAAAGAATGATGATCTGCTCCACTACTCTTTA-GGGAGATCAGACTCGAAAAACTTTG
66 CAAATCTGAAAGAATGAT-ATTTGCT-CACTACTCTTTAGGGGAGATCAAACTCGAAAAACTTTG
*
939342 ATC
129 ACC
* ** ** *
939345 CACTTCGA-TGCACTTTTGGGAAGATCAAATCGAACTTGATTTGCTTCACTACTATTTAGGAAGA
1 CACTTC-ACTGCTCTTCAGGGAAGATTGAATCGAACTTGATTTGCTTCACTACTATTAAGGAAGA
* * * *
939409 CAAAATCTGAAAGAATAAGGATTTGCTCTACTACTCTTTAGGGGAGATCAAACTTGAAAAACTTT
65 CCAAATCTGAAAGAATGA-TATTTGCTC-ACTACTCTTTAGGGGAGATCAAACTCGAAAAACTTT
*
939474 TACC
128 GACC
* * * *
939478 CACTTCACTGCTCTTCAGGGAAGATTGAATTGAACTTGATTTGCTTCACTGCTATTCA-GCAGAC
1 CACTTCACTGCTCTTCAGGGAAGATTGAATCGAACTTGATTTGCTTCACTACTATTAAGGAAGAC
* *
939542 CAAATATGAGAAAAATGATATTATGCTCACTACTCTTTAGGG
66 CAAATCTGA-AAGAATGATATT-TGCTCACTACTCTTTAGGG
939584 AAAACCATAT
Statistics
Matches: 197, Mismatches: 35, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
131 1 0.01
132 113 0.57
133 83 0.42
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (131 bp):
CACTTCACTGCTCTTCAGGGAAGATTGAATCGAACTTGATTTGCTTCACTACTATTAAGGAAGAC
CAAATCTGAAAGAATGATATTTGCTCACTACTCTTTAGGGGAGATCAAACTCGAAAAACTTTGAC
C
Found at i:941000 original size:30 final size:30
Alignment explanation
Indices: 940953--941049 Score: 87
Period size: 30 Copynumber: 3.3 Consensus size: 30
940943 CATATTGTAC
* *
940953 CTTTT-TTATTTAT-TTATTTTTCTTTTTT
1 CTTTTCTTTTTTATATTATTTTTATTTTTT
*
940981 CTTTTCTTTTTT-TCATTATTATTATTTTTAT
1 CTTTTCTTTTTTAT-ATTATTTTTATTTTT-T
* *
941012 -TCTTCTTTTTTATTTTATTTTTTATTTTTT
1 CTTTTCTTTTTTATATTA-TTTTTATTTTTT
941042 C-TTTCTTT
1 CTTTTCTTT
941050 AAGAAAAATA
Statistics
Matches: 55, Mismatches: 7, Indels: 12
0.74 0.09 0.16
Matches are distributed among these distances:
28 6 0.11
29 5 0.09
30 32 0.58
31 12 0.22
ACGTcount: A:0.11, C:0.09, G:0.00, T:0.79
Consensus pattern (30 bp):
CTTTTCTTTTTTATATTATTTTTATTTTTT
Found at i:944593 original size:25 final size:25
Alignment explanation
Indices: 944557--944616 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 25
944547 CCATGTCAAG
944557 ATAAAT-ATAAAGAAATAA-T-AATA
1 ATAAATAATAAAG-AATAATTAAATA
944580 ATTAAATAATAAAGAATAATTAAATA
1 A-TAAATAATAAAGAATAATTAAATA
*
944606 ATAAAGAATAA
1 ATAAATAATAA
944617 TTAAATGCAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
23 1 0.03
24 10 0.31
25 16 0.50
26 5 0.16
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (25 bp):
ATAAATAATAAAGAATAATTAAATA
Found at i:944597 original size:18 final size:18
Alignment explanation
Indices: 944576--944622 Score: 94
Period size: 18 Copynumber: 2.6 Consensus size: 18
944566 AAGAAATAAT
944576 AATAATTAAATAATAAAG
1 AATAATTAAATAATAAAG
944594 AATAATTAAATAATAAAG
1 AATAATTAAATAATAAAG
944612 AATAATTAAAT
1 AATAATTAAAT
944623 GCATGGGAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (18 bp):
AATAATTAAATAATAAAG
Found at i:947668 original size:7 final size:6
Alignment explanation
Indices: 947656--947767 Score: 65
Period size: 6 Copynumber: 18.7 Consensus size: 6
947646 GTAAAAAAAT
* * *
947656 AAAAGA AAGAAGA AAAAGA AAACA-A AAAACA AAAA-A CAAA-A AATAGA
1 AAAAGA AA-AAGA AAAAGA AAA-AGA AAAAGA AAAAGA AAAAGA AAAAGA
* * * *
947703 AAAA-A AGAGAATA AAAAGA AAAAGA AAACGA AGAAA-A AAAACA AATAGA
1 AAAAGA A-A-AAGA AAAAGA AAAAGA AAAAGA A-AAAGA AAAAGA AAAAGA
947752 AAAAGA GAAAA-A AAAA
1 AAAAGA -AAAAGA AAAA
947768 ATGAGAGATG
Statistics
Matches: 86, Mismatches: 10, Indels: 21
0.74 0.09 0.18
Matches are distributed among these distances:
5 17 0.20
6 51 0.59
7 16 0.19
8 2 0.02
ACGTcount: A:0.80, C:0.04, G:0.12, T:0.03
Consensus pattern (6 bp):
AAAAGA
Found at i:947705 original size:14 final size:13
Alignment explanation
Indices: 947668--947747 Score: 58
Period size: 14 Copynumber: 6.1 Consensus size: 13
947658 AAGAAAGAAG
947668 AAAAAGAAAACAA
1 AAAAAGAAAACAA
*
947681 AAAACAAAAAACAA
1 AAAA-AGAAAACAA
947695 AAAATAGAAAA-AA
1 AAAA-AGAAAACAA
* * *
947708 AGAGAATAAAA-AG
1 A-AAAAGAAAACAA
947721 AAAAAGAAAACGAA
1 AAAAAGAAAAC-AA
*
947735 GAAAA-AAAACAA
1 AAAAAGAAAACAA
947747 A
1 A
947748 TAGAAAAAGA
Statistics
Matches: 52, Mismatches: 11, Indels: 9
0.72 0.15 0.12
Matches are distributed among these distances:
12 9 0.17
13 19 0.37
14 24 0.46
ACGTcount: A:0.81, C:0.06, G:0.10, T:0.03
Consensus pattern (13 bp):
AAAAAGAAAACAA
Found at i:947755 original size:47 final size:45
Alignment explanation
Indices: 947648--947766 Score: 127
Period size: 47 Copynumber: 2.6 Consensus size: 45
947638 AAAATAGTGT
*
947648 AAAAAAATA-AAAGAA-AGAAGAAAAAGAAAACAAAAAACAAAAAA
1 AAAAAAATAGAAA-AAGAGAAAAAAAAGAAAACAAAAAACAAAAAA
* * *
947692 CAAAAAATAGAAAAAAAGAGAATAAAAAGAAAA-AGAAAACGAAGAAAA
1 AAAAAAATAG--AAAAAGAGAAAAAAAAGAAAACAAAAAAC-AA-AAAA
947740 AAAACAAATAGAAAAAGAGAAAAAAAA
1 AAAA-AAATAGAAAAAGAGAAAAAAAA
947767 AATGAGAGAT
Statistics
Matches: 63, Mismatches: 5, Indels: 11
0.80 0.06 0.14
Matches are distributed among these distances:
44 8 0.13
46 8 0.13
47 34 0.54
48 7 0.11
49 6 0.10
ACGTcount: A:0.81, C:0.04, G:0.12, T:0.03
Consensus pattern (45 bp):
AAAAAAATAGAAAAAGAGAAAAAAAAGAAAACAAAAAACAAAAAA
Found at i:951350 original size:40 final size:40
Alignment explanation
Indices: 951295--951416 Score: 217
Period size: 40 Copynumber: 3.0 Consensus size: 40
951285 TGCAGGTTTA
*
951295 TAATACACTTCGGTGTATATGGTGGGCACGACCATATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
*
951335 TAATACACTTCGGTGTATATGGTGGGCACGAACTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
*
951375 TAATACACTTTGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
951415 TA
1 TA
951417 GCACTACGGT
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 78 1.00
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.33
Consensus pattern (40 bp):
TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
Found at i:951617 original size:45 final size:45
Alignment explanation
Indices: 951527--951832 Score: 506
Period size: 45 Copynumber: 6.8 Consensus size: 45
951517 GGTAAGCATG
* *
951527 AAAATAAGCTTACGAGCTTATGAAAT-AATGGCAAGTATATTGGT
1 AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGT
*
951571 AAAATAAGCTTACGAGCTTATGGATTAAATGGTAAGTATATTGGT
1 AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGT
*
951616 AAAATAAGCTTACGAGCTTATGGATTAAATGGTAAGTATATTGGT
1 AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGT
951661 AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGT
1 AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGT
* *
951706 AAAATAAGCTTACAAGCTTATGGATTAAATGGTAAGTATATTGGT
1 AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGT
* *
951751 AAAATAAGCTTACGAGCTTATGGAATAAATGGTATGTATGTTGGT
1 AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGT
*
951796 AAAATAAGTTTACGAGCTTATGGTTAATAAATGGTAA
1 AAAATAAGCTTACGAGCTTATGG--AATAAATGGTAA
951833 AATACTGGAT
Statistics
Matches: 247, Mismatches: 12, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
44 24 0.10
45 212 0.86
47 11 0.04
ACGTcount: A:0.39, C:0.07, G:0.22, T:0.32
Consensus pattern (45 bp):
AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGT
Found at i:954043 original size:21 final size:22
Alignment explanation
Indices: 954012--954052 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
954002 CATAGCCCTA
*
954012 ATTTCATCTTCTAGTTGTTTCC
1 ATTTCATCTTCTAGCTGTTTCC
954034 ATTTC-TCTTCTAGCTGTTT
1 ATTTCATCTTCTAGCTGTTT
954053 GCTTTGCTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.12, C:0.22, G:0.10, T:0.56
Consensus pattern (22 bp):
ATTTCATCTTCTAGCTGTTTCC
Done.