Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008027.1 Hibiscus syriacus cultivar Beakdansim tig00110503_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: 7662336
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 38
Found at i:712494 original size:2 final size:2
Alignment explanation
Indices: 712487--712529 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
712477 TATTAAAGAA
712487 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
712529 A
1 A
712530 ATAAAATATA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:712620 original size:17 final size:18
Alignment explanation
Indices: 712587--712622 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
712577 ATATATACGT
*
712587 ATAATAATAACATGAATA
1 ATAAAAATAACATGAATA
712605 ATAAAAATAA-ATGAATA
1 ATAAAAATAACATGAATA
712622 A
1 A
712623 AATATCTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.67, C:0.03, G:0.06, T:0.25
Consensus pattern (18 bp):
ATAAAAATAACATGAATA
Found at i:713256 original size:21 final size:21
Alignment explanation
Indices: 713232--713287 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
713222 TAATTATTAT
* *
713232 AAATTGAGTCACGACTGCTGC
1 AAATTGAGTTACGACTACTGC
* *
713253 AAATTGA-TTACAAGTACTGC
1 AAATTGAGTTACGACTACTGC
713273 AAATTGAGTTACGAC
1 AAATTGAGTTACGAC
713288 GGTTATGAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.27
Consensus pattern (21 bp):
AAATTGAGTTACGACTACTGC
Found at i:714889 original size:15 final size:17
Alignment explanation
Indices: 714863--714896 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
714853 ATACGAGTTG
714863 ATCTGAAAATTT-GAAT
1 ATCTGAAAATTTCGAAT
714879 ATCTG-AAATTTCGAAT
1 ATCTGAAAATTTCGAAT
714895 AT
1 AT
714897 TTAAAATAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.41, C:0.09, G:0.12, T:0.38
Consensus pattern (17 bp):
ATCTGAAAATTTCGAAT
Found at i:716366 original size:24 final size:24
Alignment explanation
Indices: 716339--716392 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
716329 AAAGTTATCC
*
716339 ACTTTTAATCAAAGTAGGATTCTT
1 ACTTTCAATCAAAGTAGGATTCTT
*
716363 ACTTTCCATCAAAGTAGGATTCTT
1 ACTTTCAATCAAAGTAGGATTCTT
716387 ACTTTC
1 ACTTTC
716393 CCAAATTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.41
Consensus pattern (24 bp):
ACTTTCAATCAAAGTAGGATTCTT
Found at i:716393 original size:24 final size:24
Alignment explanation
Indices: 716346--716393 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
716336 TCCACTTTTA
716346 ATCAAAGTAGGATTCTTACTTTCC
1 ATCAAAGTAGGATTCTTACTTTCC
716370 ATCAAAGTAGGATTCTTACTTTCC
1 ATCAAAGTAGGATTCTTACTTTCC
716394 CAAATTTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (24 bp):
ATCAAAGTAGGATTCTTACTTTCC
Found at i:719148 original size:32 final size:32
Alignment explanation
Indices: 719107--719259 Score: 170
Period size: 32 Copynumber: 4.8 Consensus size: 32
719097 AGTCGAGGGT
*
719107 TTACCTATGTTCTACGGAACATATGGACAGAA
1 TTACCTATGTTCTACGGGACATATGGACAGAA
*
719139 TTACCTATG-TCTTTCGGGACATATGGACAGAA
1 TTACCTATGTTC-TACGGGACATATGGACAGAA
* * *
719171 TTACCTATG-TCTTTCGGGGCATATGGACAGTA
1 TTACCTATGTTC-TACGGGACATATGGACAGAA
* * *
719203 -TACCTATGTTCTAAGGAACATATGGACA-AT
1 TTACCTATGTTCTACGGGACATATGGACAGAA
* *
719233 TTACCTAGGTTCTACGGGACCTATGGA
1 TTACCTATGTTCTACGGGACATATGGA
719260 TAGTTTCTGA
Statistics
Matches: 104, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
31 45 0.43
32 59 0.57
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.31
Consensus pattern (32 bp):
TTACCTATGTTCTACGGGACATATGGACAGAA
Found at i:726194 original size:26 final size:26
Alignment explanation
Indices: 726158--726217 Score: 120
Period size: 26 Copynumber: 2.3 Consensus size: 26
726148 GACAAATGGC
726158 CAAGCAGAAATTTCCAATCGCGAGAT
1 CAAGCAGAAATTTCCAATCGCGAGAT
726184 CAAGCAGAAATTTCCAATCGCGAGAT
1 CAAGCAGAAATTTCCAATCGCGAGAT
726210 CAAGCAGA
1 CAAGCAGA
726218 TTTTGGAGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.40, C:0.23, G:0.20, T:0.17
Consensus pattern (26 bp):
CAAGCAGAAATTTCCAATCGCGAGAT
Found at i:731783 original size:12 final size:12
Alignment explanation
Indices: 731742--731791 Score: 55
Period size: 12 Copynumber: 4.2 Consensus size: 12
731732 CGAAATTTTT
*
731742 CACTGTTCATGG
1 CACTGTTCACGG
* * *
731754 TACTGGTCACTG
1 CACTGTTCACGG
731766 CACTGTTCACGG
1 CACTGTTCACGG
*
731778 CACTGTTCATGG
1 CACTGTTCACGG
731790 CA
1 CA
731792 TAAATATGTA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.18, C:0.28, G:0.24, T:0.30
Consensus pattern (12 bp):
CACTGTTCACGG
Found at i:734703 original size:32 final size:32
Alignment explanation
Indices: 734662--734753 Score: 91
Period size: 32 Copynumber: 2.9 Consensus size: 32
734652 AGTCGAGGGT
*
734662 TTACCTATGT-TCTACGGAACATATGGGCAGAA
1 TTACCTATGTCT-TACGGAACATATGGACAGAA
* * *
734694 TTACCTATGTCTTTCGGGATATATGGACAGAA
1 TTACCTATGTCTTACGGAACATATGGACAGAA
* **
734726 TTACC--TGTCTTTCGGGGCATATGGACAG
1 TTACCTATGTCTTACGGAACATATGGACAG
734754 TATATCTATA
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
30 21 0.40
32 31 0.58
33 1 0.02
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (32 bp):
TTACCTATGTCTTACGGAACATATGGACAGAA
Found at i:734737 original size:30 final size:31
Alignment explanation
Indices: 734680--734753 Score: 105
Period size: 30 Copynumber: 2.4 Consensus size: 31
734670 GTTCTACGGA
*
734680 ACATATGGGCAGAATTACCTATGTCTTTCGGG
1 ACATATGGACAGAATTACC-ATGTCTTTCGGG
*
734712 ATATATGGACAGAATTACC-TGTCTTTCGGG
1 ACATATGGACAGAATTACCATGTCTTTCGGG
*
734742 GCATATGGACAG
1 ACATATGGACAG
734754 TATATCTATA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
30 21 0.55
32 17 0.45
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.30
Consensus pattern (31 bp):
ACATATGGACAGAATTACCATGTCTTTCGGG
Found at i:735525 original size:22 final size:23
Alignment explanation
Indices: 735486--735541 Score: 69
Period size: 22 Copynumber: 2.4 Consensus size: 23
735476 AAAAAATTTC
735486 ACTGTTCATAGTATTGTTCACGGT
1 ACTGTTCATA-TATTGTTCACGGT
* * *
735510 ATTGTTCAT-TATTGTTGATGGT
1 ACTGTTCATATATTGTTCACGGT
735532 ACTGTTCATA
1 ACTGTTCATA
735542 CCGTTTAGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 19 0.70
24 8 0.30
ACGTcount: A:0.21, C:0.12, G:0.20, T:0.46
Consensus pattern (23 bp):
ACTGTTCATATATTGTTCACGGT
Found at i:738511 original size:31 final size:31
Alignment explanation
Indices: 738426--738525 Score: 103
Period size: 31 Copynumber: 3.2 Consensus size: 31
738416 GTCGAGGGTT
*
738426 TACCTATGTTCTACGGAACATATGGACAGAA
1 TACCTATGTTCTACGGAACATATGGACAGTA
* * **
738457 TTACCTAT-ATCTTTCGGGGCATATGGACAGTA
1 -TACCTATGTTC-TACGGAACATATGGACAGTA
* * *
738489 TACCTATGTTCTAAGGAACATATAGACAGTT
1 TACCTATGTTCTACGGAACATATGGACAGTA
738520 TACCTA
1 TACCTA
738526 GGTTTCACGG
Statistics
Matches: 54, Mismatches: 12, Indels: 5
0.76 0.17 0.07
Matches are distributed among these distances:
31 29 0.54
32 25 0.46
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (31 bp):
TACCTATGTTCTACGGAACATATGGACAGTA
Found at i:739330 original size:22 final size:23
Alignment explanation
Indices: 739296--739340 Score: 83
Period size: 22 Copynumber: 2.0 Consensus size: 23
739286 CTGATCATGG
739296 TACTGTTTTACGGTACTGTTCAT
1 TACTGTTTTACGGTACTGTTCAT
739319 TACTG-TTTACGGTACTGTTCAT
1 TACTGTTTTACGGTACTGTTCAT
739341 ACCGTATAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.18, C:0.18, G:0.18, T:0.47
Consensus pattern (23 bp):
TACTGTTTTACGGTACTGTTCAT
Found at i:740449 original size:28 final size:28
Alignment explanation
Indices: 740409--740465 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
740399 GAGCATTCAG
740409 ATGATCATGAGAATACTCTTGTTGTTTC
1 ATGATCATGAGAATACTCTTGTTGTTTC
*
740437 ATGATCATGAGAATGCTCTTGTTGTTTC
1 ATGATCATGAGAATACTCTTGTTGTTTC
740465 A
1 A
740466 AATGAACAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.25, C:0.14, G:0.19, T:0.42
Consensus pattern (28 bp):
ATGATCATGAGAATACTCTTGTTGTTTC
Found at i:751358 original size:22 final size:22
Alignment explanation
Indices: 751328--751402 Score: 114
Period size: 22 Copynumber: 3.4 Consensus size: 22
751318 TGTTGAATAG
* * *
751328 AACCATTCAGTGCTGAATGTTA
1 AACCGTTCAGCGCTGAATGCTA
*
751350 AACCGTTCAGCGCTGAATGCTG
1 AACCGTTCAGCGCTGAATGCTA
751372 AACCGTTCAGCGCTGAATGCTA
1 AACCGTTCAGCGCTGAATGCTA
751394 AACCGTTCA
1 AACCGTTCA
751403 ACATTCAGCG
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 48 1.00
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.25
Consensus pattern (22 bp):
AACCGTTCAGCGCTGAATGCTA
Found at i:754617 original size:22 final size:22
Alignment explanation
Indices: 754592--754655 Score: 66
Period size: 22 Copynumber: 3.1 Consensus size: 22
754582 GGTCTCTGTA
754592 TAACACTTTACACTGATTAAAC
1 TAACACTTTACACTGATTAAAC
* *
754614 TAACAGTTT-CACTG--T-ATC
1 TAACACTTTACACTGATTAAAC
754632 TAA-ATCTTTACACTGATTAAAC
1 TAACA-CTTTACACTGATTAAAC
754654 TA
1 TA
754656 GCAGCATTCA
Statistics
Matches: 33, Mismatches: 4, Indels: 10
0.70 0.09 0.21
Matches are distributed among these distances:
17 1 0.03
18 8 0.24
19 6 0.18
21 6 0.18
22 12 0.36
ACGTcount: A:0.38, C:0.20, G:0.06, T:0.36
Consensus pattern (22 bp):
TAACACTTTACACTGATTAAAC
Found at i:757049 original size:2 final size:2
Alignment explanation
Indices: 757037--757081 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
757027 TTCTCTAACC
757037 AT AT A- 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
757078 AT AT
1 AT AT
757082 TCTTTTTTAC
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:757815 original size:2 final size:2
Alignment explanation
Indices: 757808--757833 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
757798 AAAACACATC
757808 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
757834 TCAAACAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:758701 original size:21 final size:21
Alignment explanation
Indices: 758676--758716 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
758666 ATATAAATAC
*
758676 TTACACCTGTATAAGTATGTG
1 TTACACCGGTATAAGTATGTG
*
758697 TTACACCGGTGTAAGTATGT
1 TTACACCGGTATAAGTATGT
758717 ATTAAGTGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.27, C:0.15, G:0.22, T:0.37
Consensus pattern (21 bp):
TTACACCGGTATAAGTATGTG
Found at i:760056 original size:3 final size:3
Alignment explanation
Indices: 760048--760080 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
760038 TTGGCTCTCA
760048 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
760081 GTTTCTGTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:761493 original size:17 final size:17
Alignment explanation
Indices: 761467--761505 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 17
761457 TTCTACACTG
761467 TTTTTTTGTT-TTTGTT
1 TTTTTTTGTTATTTGTT
761483 TTTTTTATGTTCATTTGTT
1 TTTTTT-TGTT-ATTTGTT
761502 TTTT
1 TTTT
761506 AGTTTCTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 6 0.30
17 4 0.20
19 10 0.50
ACGTcount: A:0.05, C:0.03, G:0.10, T:0.82
Consensus pattern (17 bp):
TTTTTTTGTTATTTGTT
Found at i:763650 original size:34 final size:36
Alignment explanation
Indices: 763590--763730 Score: 205
Period size: 36 Copynumber: 4.0 Consensus size: 36
763580 AAAAATCATT
763590 TCACTAGAGATTGTTTTTCTTAAAACATATTTTATC
1 TCACTAGAGATTGTTTTTCTTAAAACATATTTTATC
*
763626 TCACTAGAGATT-TTTTTCTT-AAACATATTTTGTC
1 TCACTAGAGATTGTTTTTCTTAAAACATATTTTATC
* *
763660 TCACTAGAGATTGTTTTTCTTAAAATAGATTTTATC
1 TCACTAGAGATTGTTTTTCTTAAAACATATTTTATC
* * * *
763696 TCACTAGACATTATTCTTCTTAAAACAAATTTTAT
1 TCACTAGAGATTGTTTTTCTTAAAACATATTTTAT
763731 TTCTTTAAAA
Statistics
Matches: 94, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
34 25 0.27
35 16 0.17
36 53 0.56
ACGTcount: A:0.31, C:0.14, G:0.08, T:0.47
Consensus pattern (36 bp):
TCACTAGAGATTGTTTTTCTTAAAACATATTTTATC
Found at i:763670 original size:70 final size:72
Alignment explanation
Indices: 763590--763728 Score: 219
Period size: 70 Copynumber: 2.0 Consensus size: 72
763580 AAAAATCATT
* * * *
763590 TCACTAGAGATTGTTTTTCTTAAAACATATTTTATCTCACTAGAGATT-TTTTTCTT-AAACATA
1 TCACTAGAGATTGTTTTTCTTAAAACAGATTTTATCTCACTAGACATTATTCTTCTTAAAACAAA
763653 TTTTGTC
66 TTTTGTC
*
763660 TCACTAGAGATTGTTTTTCTTAAAATAGATTTTATCTCACTAGACATTATTCTTCTTAAAACAAA
1 TCACTAGAGATTGTTTTTCTTAAAACAGATTTTATCTCACTAGACATTATTCTTCTTAAAACAAA
763725 TTTT
66 TTTT
763729 ATTTCTTTAA
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
70 45 0.73
71 7 0.11
72 10 0.16
ACGTcount: A:0.31, C:0.14, G:0.08, T:0.47
Consensus pattern (72 bp):
TCACTAGAGATTGTTTTTCTTAAAACAGATTTTATCTCACTAGACATTATTCTTCTTAAAACAAA
TTTTGTC
Found at i:765553 original size:25 final size:25
Alignment explanation
Indices: 765525--765576 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
765515 CTCGAACCAA
*
765525 ACTATTAACCATTGACTGACCATTG
1 ACTATTAACCATTAACTGACCATTG
* * *
765550 ACTATTGATCATTAACTGACGATTG
1 ACTATTAACCATTAACTGACCATTG
765575 AC
1 AC
765577 CGTTAAACGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (25 bp):
ACTATTAACCATTAACTGACCATTG
Found at i:766422 original size:39 final size:40
Alignment explanation
Indices: 766363--766452 Score: 112
Period size: 39 Copynumber: 2.3 Consensus size: 40
766353 CGTAAGATCG
*
766363 TCGATTTTGTG-TTCAGGGTAAGTCCTAACCACAGAATCC
1 TCGACTTTGTGCTTCAGGGTAAGTCCTAACCACAGAATCC
* * * *
766402 TCGACTTTGTGCTT-AGGGTAAGTCTTTACCACATACTCC
1 TCGACTTTGTGCTTCAGGGTAAGTCCTAACCACAGAATCC
*
766441 TCTACTTTGTGC
1 TCGACTTTGTGC
766453 ACATGGTAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
39 42 0.95
40 2 0.05
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.36
Consensus pattern (40 bp):
TCGACTTTGTGCTTCAGGGTAAGTCCTAACCACAGAATCC
Found at i:766461 original size:39 final size:39
Alignment explanation
Indices: 766376--766466 Score: 101
Period size: 39 Copynumber: 2.3 Consensus size: 39
766366 ATTTTGTGTT
*
766376 CAGGGTAAGTCCTAACCACAGAATCCTCGACTTTGTGCT
1 CAGGGTAAGTCCTAACCACAGAATCCTCGACTTTGTGCA
* * * * * *
766415 TAGGGTAAGTCTTTACCACATACTCCTCTACTTTGTGCA
1 CAGGGTAAGTCCTAACCACAGAATCCTCGACTTTGTGCA
* *
766454 CATGGTAATTCCT
1 CAGGGTAAGTCCT
766467 TACTGCTGGC
Statistics
Matches: 41, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (39 bp):
CAGGGTAAGTCCTAACCACAGAATCCTCGACTTTGTGCA
Found at i:768054 original size:25 final size:26
Alignment explanation
Indices: 768021--768072 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
768011 AAGATAAATG
*
768021 TTTTATAGAT-AGATTTTAATAATGGA
1 TTTTATAGATGAAATTTTAATAA-GGA
*
768047 TTTT-TAGATGAAATTTTGATAAGGA
1 TTTTATAGATGAAATTTTAATAAGGA
768072 T
1 T
768073 GAGTTTTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 9 0.39
26 14 0.61
ACGTcount: A:0.37, C:0.00, G:0.17, T:0.46
Consensus pattern (26 bp):
TTTTATAGATGAAATTTTAATAAGGA
Found at i:768721 original size:34 final size:29
Alignment explanation
Indices: 768682--768753 Score: 144
Period size: 29 Copynumber: 2.5 Consensus size: 29
768672 CATATTATGA
768682 TACATGACATGAATTCATATTATATGTAT
1 TACATGACATGAATTCATATTATATGTAT
768711 TACATGACATGAATTCATATTATATGTAT
1 TACATGACATGAATTCATATTATATGTAT
768740 TACATGACATGAAT
1 TACATGACATGAAT
768754 ATGCAGAAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (29 bp):
TACATGACATGAATTCATATTATATGTAT
Found at i:768809 original size:30 final size:30
Alignment explanation
Indices: 768775--768833 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
768765 GTTATATGAG
* *
768775 CTATGTGATAAAGGTATGTAAATGATATGC
1 CTATGTGATAAAGGTATGGAAATAATATGC
768805 CTATGTGATAAAGGTATGGAAATAATATG
1 CTATGTGATAAAGGTATGGAAATAATATG
768834 TCTACGCGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.39, C:0.05, G:0.24, T:0.32
Consensus pattern (30 bp):
CTATGTGATAAAGGTATGGAAATAATATGC
Found at i:769144 original size:24 final size:24
Alignment explanation
Indices: 769079--769146 Score: 68
Period size: 24 Copynumber: 2.8 Consensus size: 24
769069 CAATATTATA
*
769079 TGGCACTACGGTGCAAAATTCTACG
1 TGGCACTTCGGTGC-AAATTCTACG
* *
769104 CGGTC-CTTTGG-GACAAATTCTACG
1 TGG-CACTTCGGTG-CAAATTCTACG
769128 TGGCACTTCGGTGCAAATT
1 TGGCACTTCGGTGCAAATT
769147 TATACGAGCT
Statistics
Matches: 34, Mismatches: 5, Indels: 9
0.71 0.10 0.19
Matches are distributed among these distances:
23 1 0.03
24 24 0.71
25 8 0.24
26 1 0.03
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.28
Consensus pattern (24 bp):
TGGCACTTCGGTGCAAATTCTACG
Found at i:775822 original size:34 final size:29
Alignment explanation
Indices: 775783--775854 Score: 144
Period size: 29 Copynumber: 2.5 Consensus size: 29
775773 CATATTATGA
775783 TACATGACATGAATTCATATTATATGTAT
1 TACATGACATGAATTCATATTATATGTAT
775812 TACATGACATGAATTCATATTATATGTAT
1 TACATGACATGAATTCATATTATATGTAT
775841 TACATGACATGAAT
1 TACATGACATGAAT
775855 ATGCAGAAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (29 bp):
TACATGACATGAATTCATATTATATGTAT
Found at i:775910 original size:30 final size:30
Alignment explanation
Indices: 775876--775934 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
775866 GTTATATGAG
* *
775876 CTATGTGATAAAGGTATGTAAATGATATGC
1 CTATGTGATAAAGGTATGGAAATAATATGC
775906 CTATGTGATAAAGGTATGGAAATAATATG
1 CTATGTGATAAAGGTATGGAAATAATATG
775935 TCTACGCGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.39, C:0.05, G:0.24, T:0.32
Consensus pattern (30 bp):
CTATGTGATAAAGGTATGGAAATAATATGC
Found at i:776245 original size:24 final size:24
Alignment explanation
Indices: 776180--776247 Score: 68
Period size: 24 Copynumber: 2.8 Consensus size: 24
776170 CAATATTATA
*
776180 TGGCACTACGGTGCAAAATTCTACG
1 TGGCACTTCGGTGC-AAATTCTACG
* *
776205 CGGTC-CTTTGG-GACAAATTCTACG
1 TGG-CACTTCGGTG-CAAATTCTACG
776229 TGGCACTTCGGTGCAAATT
1 TGGCACTTCGGTGCAAATT
776248 TATACGAGCT
Statistics
Matches: 34, Mismatches: 5, Indels: 9
0.71 0.10 0.19
Matches are distributed among these distances:
23 1 0.03
24 24 0.71
25 8 0.24
26 1 0.03
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.28
Consensus pattern (24 bp):
TGGCACTTCGGTGCAAATTCTACG
Found at i:779285 original size:3 final size:3
Alignment explanation
Indices: 779277--779311 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
779267 TAAGTAGGGG
779277 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
779312 CATATTAGGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:779990 original size:77 final size:75
Alignment explanation
Indices: 779803--780012 Score: 253
Period size: 77 Copynumber: 2.8 Consensus size: 75
779793 ACTCATCAAG
* * * * *
779803 AAACCTTTGAAAATCAAATTTGGCTTCTTT-CAAAGTTCATTTG-AAACATCATATCAATAGGGA
1 AAACCTTTGAAAATCAAACTTGGATTCTTTAAAAAATTCATTTGAAAACATCATATCGATAGGGA
* *
779866 AATCATCAAG
66 AATCATAAAA
* * **
779876 CAACCTTTGAAAATCAAACTTGGATTCTTTAAAAAAAATTCATTTGAAAACATCATATCGTTCTG
1 AAACCTTTGAAAATCAAACTTGGATTCTTT--AAAAAATTCATTTGAAAACATCATATCGATAGG
779941 GAAATCATAAAAAA
64 GAAATCAT--AAAA
* *
779955 AAACCTTTGAAAATCAAACTTGGATTCTTTAAAAAATTCATTAGAAAATATCATATCG
1 AAACCTTTGAAAATCAAACTTGGATTCTTTAAAAAATTCATTTGAAAACATCATATCG
780013 GTCGGGTAAC
Statistics
Matches: 117, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
73 27 0.23
76 11 0.09
77 48 0.41
79 31 0.26
ACGTcount: A:0.43, C:0.15, G:0.10, T:0.31
Consensus pattern (75 bp):
AAACCTTTGAAAATCAAACTTGGATTCTTTAAAAAATTCATTTGAAAACATCATATCGATAGGGA
AATCATAAAA
Found at i:787066 original size:14 final size:15
Alignment explanation
Indices: 787044--787086 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
787034 AAGTTAAGAA
787044 AACCTAAATCTAAAG
1 AACCTAAATCTAAAG
*
787059 GA-CTAAAT-TAAAAG
1 AACCTAAATCT-AAAG
787073 AACCTAAATCTAAA
1 AACCTAAATCTAAA
787087 AGATTCAACC
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
13 1 0.04
14 11 0.48
15 10 0.43
16 1 0.04
ACGTcount: A:0.56, C:0.16, G:0.07, T:0.21
Consensus pattern (15 bp):
AACCTAAATCTAAAG
Found at i:787076 original size:29 final size:29
Alignment explanation
Indices: 787031--787086 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
787021 GGTAAATTCA
*
787031 ACTAAGTTAAGAAAACCTAAATCTAAAGG
1 ACTAAATTAAGAAAACCTAAATCTAAAGG
787060 ACTAAATTAA-AAGAACCTAAATCTAAA
1 ACTAAATTAAGAA-AACCTAAATCTAAA
787087 AGATTCAACC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 2 0.08
29 23 0.92
ACGTcount: A:0.55, C:0.14, G:0.09, T:0.21
Consensus pattern (29 bp):
ACTAAATTAAGAAAACCTAAATCTAAAGG
Found at i:787887 original size:37 final size:37
Alignment explanation
Indices: 787853--787922 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 37
787843 TAAAAATTGT
787853 AAAATATTTATAT-ATTTTATTTAAAAAATTAAATTC
1 AAAATATTTATATAATTTTATTTAAAAAATTAAATTC
* * *
787889 ATAATATTTATATAATTTTTTTTACAAAATTAAA
1 AAAATATTTATATAATTTTATTTAAAAAATTAAA
787923 ATATAAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
36 12 0.40
37 18 0.60
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (37 bp):
AAAATATTTATATAATTTTATTTAAAAAATTAAATTC
Found at i:791260 original size:18 final size:18
Alignment explanation
Indices: 791226--791260 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
791216 GAGAATCGAG
*
791226 GAAGAAATTAGAATCAAA
1 GAAGAAATAAGAATCAAA
*
791244 GAAGAAATAAGACTCAA
1 GAAGAAATAAGAATCAA
791261 GGTTATGACA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.60, C:0.09, G:0.17, T:0.14
Consensus pattern (18 bp):
GAAGAAATAAGAATCAAA
Found at i:796255 original size:107 final size:107
Alignment explanation
Indices: 796065--796261 Score: 247
Period size: 107 Copynumber: 1.8 Consensus size: 107
796055 CTAATTGAGG
* * *
796065 CTATTTTGGGTGTCTCACACTGGAGCCCCGAAGGATTAGAGTGACTCACACGGGAGCACCTAATC
1 CTATTTTGGGTGTCTCACACTGAAGCCCCAAAGGATTAGAGTGACTCACACGAGAGCACCTAATC
** * *
796130 GTTGCTATTTCAGATGTCTCGCACGAGAGCACCTAATCGTAT
66 AATGATATATCAGATGTCTCGCACGAGAGCACCTAATCGTAT
* * *
796172 CTATTTTGGGTGTCTCACA-TGAATGCCCCAAAGGATTATAGTGACTCGCATGAGAGCACCTAAT
1 CTATTTTGGGTGTCTCACACTGAA-GCCCCAAAGGATTAGAGTGACTCACACGAGAGCACCTAAT
*
796236 -AATGATCGTATC-GAGTGTCTCGCACG
65 CAATGAT-ATATCAGA-TGTCTCGCACG
796262 GGTACCTCAA
Statistics
Matches: 76, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
106 8 0.11
107 68 0.89
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.27
Consensus pattern (107 bp):
CTATTTTGGGTGTCTCACACTGAAGCCCCAAAGGATTAGAGTGACTCACACGAGAGCACCTAATC
AATGATATATCAGATGTCTCGCACGAGAGCACCTAATCGTAT
Found at i:796954 original size:58 final size:59
Alignment explanation
Indices: 796856--796984 Score: 183
Period size: 58 Copynumber: 2.2 Consensus size: 59
796846 ATTAAAAGGT
* *
796856 AAAGTATACAAATGGTCTCCCAACTATAAATCATTGTTTTATTGAGT-CACTCGACTATTA
1 AAAGT-TACAAATCGTCTCCCAACTATAAATCATTATTTTATTGAGTCCACT-GACTATTA
*
796916 AAAGTTACAAATCGTCT-CCAACTATATAGT-ATTATTTTATTGAGTCCACTGACTATTA
1 AAAGTTACAAATCGTCTCCCAACTATA-AATCATTATTTTATTGAGTCCACTGACTATTA
796974 AAAGTTACAAA
1 AAAGTTACAAA
796985 ATGATCACAC
Statistics
Matches: 64, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
58 42 0.66
59 17 0.27
60 5 0.08
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.35
Consensus pattern (59 bp):
AAAGTTACAAATCGTCTCCCAACTATAAATCATTATTTTATTGAGTCCACTGACTATTA
Found at i:799140 original size:2 final size:2
Alignment explanation
Indices: 799133--799157 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
799123 ATTATGTAAG
799133 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 T
799158 GCAGTCTCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:799672 original size:31 final size:32
Alignment explanation
Indices: 799637--799698 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 32
799627 TTTTGAATGA
799637 TCATCAAATTTAATTTG-GTTTGACAAATTGC
1 TCATCAAATTTAATTTGAGTTTGACAAATTGC
* *
799668 TCATCAAATTTAATTTGATTTTGACCAATTG
1 TCATCAAATTTAATTTGAGTTTGACAAATTG
799699 TCAATTCTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
31 17 0.61
32 11 0.39
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.44
Consensus pattern (32 bp):
TCATCAAATTTAATTTGAGTTTGACAAATTGC
Found at i:801381 original size:32 final size:32
Alignment explanation
Indices: 801345--801406 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
801335 CATATTATCA
801345 AAATTAATGATGTGGTATATATCACATCATAT
1 AAATTAATGATGTGGTATATATCACATCATAT
*
801377 AAATTGATGATGTGGTATATATCACATCAT
1 AAATTAATGATGTGGTATATATCACATCAT
801407 TCTAAGTGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.37
Consensus pattern (32 bp):
AAATTAATGATGTGGTATATATCACATCATAT
Found at i:803685 original size:21 final size:21
Alignment explanation
Indices: 803647--803686 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
803637 AAAATAATAG
* *
803647 AGATAAAATAATTTTTTAACA
1 AGATAAAATAAATCTTTAACA
*
803668 AGATTAAATAAATCTTTAA
1 AGATAAAATAAATCTTTAA
803687 TCTCAAGAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.38
Consensus pattern (21 bp):
AGATAAAATAAATCTTTAACA
Found at i:804386 original size:24 final size:24
Alignment explanation
Indices: 804337--804416 Score: 110
Period size: 23 Copynumber: 3.4 Consensus size: 24
804327 TAAAAAAACA
804337 TAAACGAACAC-AATAAACGAACG
1 TAAACGAACACAAATAAACGAACG
* *
804360 TAAACGAACACAAATGAACGAATG
1 TAAACGAACACAAATAAACGAACG
* *
804384 TAAACGAACACAAA-AAATGAACA
1 TAAACGAACACAAATAAACGAACG
804407 TAAACGAACA
1 TAAACGAACA
804417 TAACTGAAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
23 26 0.52
24 24 0.48
ACGTcount: A:0.59, C:0.19, G:0.12, T:0.10
Consensus pattern (24 bp):
TAAACGAACACAAATAAACGAACG
Found at i:804693 original size:3 final size:3
Alignment explanation
Indices: 804685--804736 Score: 61
Period size: 3 Copynumber: 17.7 Consensus size: 3
804675 TCTATATCTA
* * * *
804685 TAT TAT TAT TAT TAT TAT TAT TAT T-T TAA TAT TAT TAT AAA TAA TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
804732 TAT TA
1 TAT TA
804737 GGGTAAAGTA
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:804971 original size:18 final size:18
Alignment explanation
Indices: 804948--804996 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
804938 ACAACACAAT
804948 CCTCAATTTCATTCTAAA
1 CCTCAATTTCATTCTAAA
*
804966 CCTCAATTTTATTCTAAA
1 CCTCAATTTCATTCTAAA
* *
804984 CCCCAAATTCATT
1 CCTCAATTTCATT
804997 TTCATTCTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.33, C:0.29, G:0.00, T:0.39
Consensus pattern (18 bp):
CCTCAATTTCATTCTAAA
Found at i:805892 original size:21 final size:21
Alignment explanation
Indices: 805868--805911 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
805858 TTTTATTAAA
805868 TACCCGATAAGCTTTAGAATT
1 TACCCGATAAGCTTTAGAATT
805889 TACCCGATAAGCTTTAGAATT
1 TACCCGATAAGCTTTAGAATT
805910 TA
1 TA
805912 AGGAATAACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (21 bp):
TACCCGATAAGCTTTAGAATT
Found at i:808911 original size:20 final size:20
Alignment explanation
Indices: 808873--808911 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
808863 TAAGAAATTA
*
808873 ATTGATGCATCGATTCATGG
1 ATTGATGCATCGATGCATGG
* *
808893 ATTGGTGCATCGGTGCATG
1 ATTGATGCATCGATGCATG
808912 CCCTTGAAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.15, G:0.31, T:0.33
Consensus pattern (20 bp):
ATTGATGCATCGATGCATGG
Found at i:809265 original size:14 final size:14
Alignment explanation
Indices: 809246--809273 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
809236 TTTGAAATTA
809246 TTCCAAATTACTCC
1 TTCCAAATTACTCC
809260 TTCCAAATTACTCC
1 TTCCAAATTACTCC
809274 CCTTTACTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.36, G:0.00, T:0.36
Consensus pattern (14 bp):
TTCCAAATTACTCC
Found at i:811640 original size:24 final size:24
Alignment explanation
Indices: 811608--811670 Score: 108
Period size: 24 Copynumber: 2.6 Consensus size: 24
811598 TCATCAGTAA
* *
811608 GATGAATCGATGCACATTGAAAGG
1 GATGCATCGATGCACATTCAAAGG
811632 GATGCATCGATGCACATTCAAAGG
1 GATGCATCGATGCACATTCAAAGG
811656 GATGCATCGATGCAC
1 GATGCATCGATGCAC
811671 TGCTAAGTGT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.21
Consensus pattern (24 bp):
GATGCATCGATGCACATTCAAAGG
Found at i:817595 original size:64 final size:63
Alignment explanation
Indices: 817481--817605 Score: 164
Period size: 64 Copynumber: 2.0 Consensus size: 63
817471 TGCAATAAGA
* **
817481 GTGCATCGATGCATAAAATGCATTCGATGTTTTGAAAAAGCCTGAGTGCATCGATGCATGGTAT
1 GTGCATCAATGCATAAAATGCATTCGATGTTAAGAAAAA-CCTGAGTGCATCGATGCATGGTAT
*
817545 GTGCATCAATGCATAAAATGCATTCGATGTTCAAGAAATTAA-TTGA-TGCATCGATGCATGG
1 GTGCATCAATGCATAAAATGCATTCGATGTT-AAGAAA--AACCTGAGTGCATCGATGCATGG
817606 ATTGGTGCAT
Statistics
Matches: 54, Mismatches: 4, Indels: 6
0.84 0.06 0.09
Matches are distributed among these distances:
64 45 0.83
65 7 0.13
67 2 0.04
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (63 bp):
GTGCATCAATGCATAAAATGCATTCGATGTTAAGAAAAACCTGAGTGCATCGATGCATGGTAT
Found at i:817614 original size:20 final size:20
Alignment explanation
Indices: 817586--817624 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
817576 CAAGAAATTA
817586 ATTGATGCATCGATGCATGG
1 ATTGATGCATCGATGCATGG
* *
817606 ATTGGTGCATCGGTGCATG
1 ATTGATGCATCGATGCATG
817625 CCCTTGAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.15, G:0.33, T:0.31
Consensus pattern (20 bp):
ATTGATGCATCGATGCATGG
Found at i:819379 original size:20 final size:20
Alignment explanation
Indices: 819354--819402 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
819344 AAATTGGTAT
819354 AGGGGTATCAGA-ACACTATG
1 AGGGGTATCA-ATACACTATG
* *
819374 AGGGGTATCAATGCCCTATG
1 AGGGGTATCAATACACTATG
819394 AGGGGTATC
1 AGGGGTATC
819403 GGTACCAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 1 0.04
20 25 0.96
ACGTcount: A:0.29, C:0.16, G:0.33, T:0.22
Consensus pattern (20 bp):
AGGGGTATCAATACACTATG
Found at i:824815 original size:20 final size:20
Alignment explanation
Indices: 824790--824829 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
824780 ATGAAATAAA
824790 AATTTTCAAAAAAAATATAT
1 AATTTTCAAAAAAAATATAT
* *
824810 AATTTTTATAAAAAATATAT
1 AATTTTCAAAAAAAATATAT
824830 TTTTTTTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (20 bp):
AATTTTCAAAAAAAATATAT
Found at i:826970 original size:13 final size:15
Alignment explanation
Indices: 826948--826979 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
826938 TTTGAAATTT
826948 TTTTCTAAAAT-TAA
1 TTTTCTAAAATCTAA
826962 TTTTC-AAAATCTAA
1 TTTTCTAAAATCTAA
826976 TTTT
1 TTTT
826980 TCATTAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 5 0.29
14 12 0.71
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (15 bp):
TTTTCTAAAATCTAA
Found at i:830095 original size:21 final size:21
Alignment explanation
Indices: 830071--830136 Score: 71
Period size: 21 Copynumber: 3.2 Consensus size: 21
830061 GCAAATTCGC
830071 GTTGCATTTCGCGTTGCGATA
1 GTTGCATTTCGCGTTGCGATA
* **
830092 GTTGAAAATCGCGTTGCGAT-
1 GTTGCATTTCGCGTTGCGATA
* * *
830112 TTTCCATTTCACGTTGCGATA
1 GTTGCATTTCGCGTTGCGATA
830133 GTTG
1 GTTG
830137 AAAATCGCAA
Statistics
Matches: 33, Mismatches: 11, Indels: 2
0.72 0.24 0.04
Matches are distributed among these distances:
20 14 0.42
21 19 0.58
ACGTcount: A:0.18, C:0.18, G:0.26, T:0.38
Consensus pattern (21 bp):
GTTGCATTTCGCGTTGCGATA
Found at i:830120 original size:41 final size:41
Alignment explanation
Indices: 830075--830210 Score: 227
Period size: 41 Copynumber: 3.3 Consensus size: 41
830065 ATTCGCGTTG
***
830075 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCAACGCGATTTTC
*
830116 CATTTCACGTTGCGATAGTTGAAAATCGCAACGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCAACGCGATTTTC
*
830157 CATTTCGCGTTGCGATAATTGAAAATCGCAACGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCAACGCGATTTTC
830198 CATTTCGCGTTGC
1 CATTTCGCGTTGC
830211 AATTTTCCAT
Statistics
Matches: 89, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 89 1.00
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.34
Consensus pattern (41 bp):
CATTTCGCGTTGCGATAGTTGAAAATCGCAACGCGATTTTC
Found at i:830171 original size:20 final size:20
Alignment explanation
Indices: 830148--830224 Score: 64
Period size: 20 Copynumber: 3.8 Consensus size: 20
830138 AAATCGCAAC
830148 GCGATTTTCCATTTCGCGTT
1 GCGATTTTCCATTTCGCGTT
* ** ** ***
830168 GCGATAATTGAAAATCGCAAC
1 GCGAT-TTTCCATTTCGCGTT
830189 GCGATTTTCCATTTCGCGTT
1 GCGATTTTCCATTTCGCGTT
*
830209 GCAATTTTCCATTTCG
1 GCGATTTTCCATTTCG
830225 TGTATAGTCT
Statistics
Matches: 39, Mismatches: 17, Indels: 2
0.67 0.29 0.03
Matches are distributed among these distances:
20 27 0.69
21 12 0.31
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.38
Consensus pattern (20 bp):
GCGATTTTCCATTTCGCGTT
Found at i:830256 original size:22 final size:22
Alignment explanation
Indices: 830228--830276 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
830218 CATTTCGTGT
*
830228 ATAGTCTACAGTTGTTGTTGCG
1 ATAGTCTACAGTTGTCGTTGCG
830250 ATAGTCTACAGTTGTCGTTGCG
1 ATAGTCTACAGTTGTCGTTGCG
830272 ATAGT
1 ATAGT
830277 TAAAAAAAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.20, C:0.14, G:0.27, T:0.39
Consensus pattern (22 bp):
ATAGTCTACAGTTGTCGTTGCG
Found at i:831004 original size:20 final size:20
Alignment explanation
Indices: 830979--831149 Score: 185
Period size: 20 Copynumber: 8.8 Consensus size: 20
830969 ACTGTAGACT
830979 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
830999 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
* * ** *
831019 ATCGCAATGCG-ATTTTAACTT
1 ATCGCAACGCGAAATGGAA--A
*
831040 ATCGCAACGCGAAATGAAAA
1 ATCGCAACGCGAAATGGAAA
*
831060 ATCGCAACGCGAAATGAAAA
1 ATCGCAACGCGAAATGGAAA
*
831080 ATCGCAACGCGAACTGGAAA
1 ATCGCAACGCGAAATGGAAA
*
831100 ATCGCAACGCG--AT----T
1 ATCGCAACGCGAAATGGAAA
831114 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
*
831134 ATCTCAACGCGAAATG
1 ATCGCAACGCGAAATG
831150 CAACGCGAAT
Statistics
Matches: 126, Mismatches: 16, Indels: 18
0.79 0.10 0.11
Matches are distributed among these distances:
14 11 0.09
16 2 0.02
18 1 0.01
19 4 0.03
20 94 0.75
21 10 0.08
22 4 0.03
ACGTcount: A:0.42, C:0.22, G:0.22, T:0.15
Consensus pattern (20 bp):
ATCGCAACGCGAAATGGAAA
Found at i:834972 original size:24 final size:24
Alignment explanation
Indices: 834944--835040 Score: 97
Period size: 24 Copynumber: 4.0 Consensus size: 24
834934 GAATATTTTA
* * *
834944 TCTGATTTCTGATTTGAATTCTAT
1 TCTGATATCTGATCTGAATTCTGT
* *
834968 TCTGACATCTGATCTGAAATCTGT
1 TCTGATATCTGATCTGAATTCTGT
* * *
834992 TCTGAT-TCCTGACCTGGATTTTGT
1 TCTGATAT-CTGATCTGAATTCTGT
*
835016 TCTGATATCTGATCTGAATTATGT
1 TCTGATATCTGATCTGAATTCTGT
835040 T
1 T
835041 TTGTTTTTTG
Statistics
Matches: 58, Mismatches: 13, Indels: 4
0.77 0.17 0.05
Matches are distributed among these distances:
23 1 0.02
24 56 0.97
25 1 0.02
ACGTcount: A:0.21, C:0.16, G:0.16, T:0.46
Consensus pattern (24 bp):
TCTGATATCTGATCTGAATTCTGT
Found at i:835482 original size:21 final size:18
Alignment explanation
Indices: 835439--835477 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
835429 GTTTATCTGT
*
835439 ATCTGCACGTTCTTCAGC
1 ATCTGCACATTCTTCAGC
835457 ATCTGCACATTCTTCAGC
1 ATCTGCACATTCTTCAGC
835475 ATC
1 ATC
835478 ATCTGGTAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.33
Consensus pattern (18 bp):
ATCTGCACATTCTTCAGC
Found at i:838514 original size:7 final size:7
Alignment explanation
Indices: 838502--838531 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
838492 TCTACTAAAA
838502 AAATATT
1 AAATATT
838509 AAATATT
1 AAATATT
*
838516 AAACATT
1 AAATATT
838523 AAATATT
1 AAATATT
838530 AA
1 AA
838532 TTTAACGTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (7 bp):
AAATATT
Found at i:841836 original size:32 final size:32
Alignment explanation
Indices: 841726--841836 Score: 132
Period size: 32 Copynumber: 3.5 Consensus size: 32
841716 CCTAAGGTGA
* * * * * *
841726 CCTTGGGTAGACACTGAGGCCCCAAGGCATTT
1 CCTTGGGTAGGCTCTAAGGCCCTAAGGCACTC
*
841758 CCTTGGGTAGGCTCTAAGGCCCTAAGGCACTT
1 CCTTGGGTAGGCTCTAAGGCCCTAAGGCACTC
* *
841790 CCTTGGGTAGGCTCTTAGGCCCTAAGGTACTC
1 CCTTGGGTAGGCTCTAAGGCCCTAAGGCACTC
*
841822 CCTTGGGTATGCTCT
1 CCTTGGGTAGGCTCT
841837 CATGCCCCAA
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 70 1.00
ACGTcount: A:0.17, C:0.28, G:0.28, T:0.27
Consensus pattern (32 bp):
CCTTGGGTAGGCTCTAAGGCCCTAAGGCACTC
Found at i:841856 original size:32 final size:32
Alignment explanation
Indices: 841726--841857 Score: 102
Period size: 32 Copynumber: 4.1 Consensus size: 32
841716 CCTAAGGTGA
* * * ** * *
841726 CCTTGGGTAGACACTGAGGCCCCAAGGCATTT
1 CCTTGGGTAGGCTCTCAGGCCCCAAGATACTC
* * ** *
841758 CCTTGGGTAGGCTCTAAGGCCCTAAGGCACTT
1 CCTTGGGTAGGCTCTCAGGCCCCAAGATACTC
* * *
841790 CCTTGGGTAGGCTCTTAGGCCCTAAGGTACTC
1 CCTTGGGTAGGCTCTCAGGCCCCAAGATACTC
* * *
841822 CCTTGGGTATGCTCTCATGCCCCAAGATATTC
1 CCTTGGGTAGGCTCTCAGGCCCCAAGATACTC
841854 CCTT
1 CCTT
841858 AGGTTGGCAC
Statistics
Matches: 86, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 86 1.00
ACGTcount: A:0.18, C:0.30, G:0.25, T:0.27
Consensus pattern (32 bp):
CCTTGGGTAGGCTCTCAGGCCCCAAGATACTC
Found at i:844257 original size:86 final size:86
Alignment explanation
Indices: 844112--844283 Score: 292
Period size: 86 Copynumber: 2.0 Consensus size: 86
844102 ATAAATCACT
*
844112 TGATATTTGTCAAAAATCATGTCAAAAGATCATGACTTTTTGATTGGTATAAAACTTTCGAGACC
1 TGATATTTGTCAAAAATCATGTCAAAAGATCATGACTTCTTGATTGGTATAAAACTTTCGAGACC
844177 CAATGTCTATAGATGTTCTCC
66 CAATGTCTATAGATGTTCTCC
* *
844198 TGATATTTGTCAAAAAAT-ATGTCAAAGGATCATGACTTCTTGATTGGTATAAAACTTTCGAGGC
1 TGATATTTGTC-AAAAATCATGTCAAAAGATCATGACTTCTTGATTGGTATAAAACTTTCGAGAC
*
844262 CCAATGTCTATTGATGTTCTCC
65 CCAATGTCTATAGATGTTCTCC
844284 CGGTCGTTAT
Statistics
Matches: 81, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
86 75 0.93
87 6 0.07
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.36
Consensus pattern (86 bp):
TGATATTTGTCAAAAATCATGTCAAAAGATCATGACTTCTTGATTGGTATAAAACTTTCGAGACC
CAATGTCTATAGATGTTCTCC
Found at i:845407 original size:20 final size:21
Alignment explanation
Indices: 845379--845417 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
845369 TTGTTTTAAT
845379 AAATAAATT-TTAAAATTTATA
1 AAATAAATTATT-AAATTTATA
845400 AAAT-AATTATTAAATTTA
1 AAATAAATTATTAAATTTA
845418 CTAATTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
AAATAAATTATTAAATTTATA
Found at i:858149 original size:22 final size:22
Alignment explanation
Indices: 858121--858163 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
858111 TACTGAAATG
* *
858121 AGTATCGATACCATAGTAGGGA
1 AGTATCGATACAATAGGAGGGA
858143 AGTATCGATACAATAGGAGGG
1 AGTATCGATACAATAGGAGGG
858164 GTACCGATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.37, C:0.12, G:0.30, T:0.21
Consensus pattern (22 bp):
AGTATCGATACAATAGGAGGGA
Found at i:858706 original size:54 final size:54
Alignment explanation
Indices: 858480--858707 Score: 296
Period size: 54 Copynumber: 4.2 Consensus size: 54
858470 TGCATTTTTA
* *
858480 TATCGGCACTATGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACAACCG
1 TATCGGCACTATGTGTGCAACCCACAGAATTCATAATAAGTTTATGAACGACCG
* * * * *
858534 CATCGGCACTATGTGTTCAACCTAC-GTAATTCCTAAAAAGTTTATGAACGACCG
1 TATCGGCACTATGTGTGCAACCCACAG-AATTCATAATAAGTTTATGAACGACCG
* * * * *
858588 CATCGACACTATGTGTGCAACCAATAGAATTCATAATAAGTTTATGAACGACTG
1 TATCGGCACTATGTGTGCAACCCACAGAATTCATAATAAGTTTATGAACGACCG
* * *
858642 TATCGACACTATGTGTGAAACCCACAGAATTCATAATAAGTTTATGAACGACCA
1 TATCGGCACTATGTGTGCAACCCACAGAATTCATAATAAGTTTATGAACGACCG
*
858696 TATTGGCACTAT
1 TATCGGCACTAT
858708 ATAATAAGTT
Statistics
Matches: 151, Mismatches: 21, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
53 1 0.01
54 149 0.99
55 1 0.01
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.28
Consensus pattern (54 bp):
TATCGGCACTATGTGTGCAACCCACAGAATTCATAATAAGTTTATGAACGACCG
Found at i:858769 original size:88 final size:88
Alignment explanation
Indices: 858620--858795 Score: 262
Period size: 88 Copynumber: 2.0 Consensus size: 88
858610 AATAGAATTC
* **
858620 ATAATAAGTTTATGAACGACTGTATCGACACTATGTGTGAAACCCACAGAATTCATAATAAGTTT
1 ATAATAAGTTTAAGAAAAACTGTATCGACACTATGTGTGAAACCCACAGAATTCATAATAAGTTT
*
858685 ATGAACGACCATATTGGCACTAT
66 ATGAACGACCATATCGGCACTAT
* * * * *
858708 ATAATAAGTTTAAGAAAAATTGTATTGATACTATGTGTGCAACCCACGGAATTCATAATAAGTTT
1 ATAATAAGTTTAAGAAAAACTGTATCGACACTATGTGTGAAACCCACAGAATTCATAATAAGTTT
*
858773 ATGAACGACCGTATCGGCACTAT
66 ATGAACGACCATATCGGCACTAT
858796 GTGTGCAACC
Statistics
Matches: 78, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
88 78 1.00
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (88 bp):
ATAATAAGTTTAAGAAAAACTGTATCGACACTATGTGTGAAACCCACAGAATTCATAATAAGTTT
ATGAACGACCATATCGGCACTAT
Found at i:858795 original size:54 final size:54
Alignment explanation
Indices: 858737--858901 Score: 242
Period size: 54 Copynumber: 3.1 Consensus size: 54
858727 TTGTATTGAT
* *
858737 ACTATGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGACCGTATCGGC
1 ACTATGTGTGCAACCCAAGGAATTCATAATAAGTTTATGAACGACCATATCGGC
*
858791 ACTATGTGTGCAACCCAAGG-ATTCATAATAAGTTTATGAACGACCATATCGAC
1 ACTATGTGTGCAACCCAAGGAATTCATAATAAGTTTATGAACGACCATATCGGC
* * * * * *
858844 ACTATGTGTGTAACCCATGAAATTCATAATGAGCTTATGAACGACCATATTGGC
1 ACTATGTGTGCAACCCAAGGAATTCATAATAAGTTTATGAACGACCATATCGGC
858898 ACTA
1 ACTA
858902 CATGTGCGCC
Statistics
Matches: 100, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
53 48 0.48
54 52 0.52
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (54 bp):
ACTATGTGTGCAACCCAAGGAATTCATAATAAGTTTATGAACGACCATATCGGC
Found at i:858884 original size:195 final size:196
Alignment explanation
Indices: 858541--858901 Score: 564
Period size: 195 Copynumber: 1.8 Consensus size: 196
858531 CCGCATCGGC
* * * *
858541 ACTATGTGTTCAACCTACGTAATTCCTAAAAAGTTTATGAACGACCGCATCGACACTATGTGTGC
1 ACTATGTGTGCAACCCACGGAATTCATAAAAAGTTTATGAACGACCGCATCGACACTATGTGTGC
**
858606 AACCAATAGAATTCATAATAAGTTTATGAACGACTGTATCGACACTATGTGTGAAACCCACAGAA
66 AACCAATAGAATTCATAATAAGTTTATGAACGACCATATCGACACTATGTGTGAAACCCACAGAA
*
858671 TTCATAATAAGTTTATGAACGACCATATTGGCACTATATAATAAGTTTAAGAAAAATTGTATTGA
131 TTCATAATAAGCTTATGAACGACCATATTGGCACTATATAATAAGTTTAAGAAAAATTGTATTGA
858736 T
196 T
* * *
858737 ACTATGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGACCGTATCGGCACTATGTGTGC
1 ACTATGTGTGCAACCCACGGAATTCATAAAAAGTTTATGAACGACCGCATCGACACTATGTGTGC
* * * *
858802 AACCCA-AGGATTCATAATAAGTTTATGAACGACCATATCGACACTATGTGTGTAACCCA-TGAA
66 AACCAATAGAATTCATAATAAGTTTATGAACGACCATATCGACACTATGTGTGAAACCCACAG-A
*
858865 ATTCATAATGAGCTTATGAACGACCATATTGGCACTA
130 ATTCATAATAAGCTTATGAACGACCATATTGGCACTA
858902 CATGTGCGCC
Statistics
Matches: 149, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
194 1 0.01
195 85 0.57
196 63 0.42
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.29
Consensus pattern (196 bp):
ACTATGTGTGCAACCCACGGAATTCATAAAAAGTTTATGAACGACCGCATCGACACTATGTGTGC
AACCAATAGAATTCATAATAAGTTTATGAACGACCATATCGACACTATGTGTGAAACCCACAGAA
TTCATAATAAGCTTATGAACGACCATATTGGCACTATATAATAAGTTTAAGAAAAATTGTATTGA
T
Found at i:865003 original size:20 final size:20
Alignment explanation
Indices: 864978--865070 Score: 186
Period size: 20 Copynumber: 4.7 Consensus size: 20
864968 ACTGAAGTGG
864978 GGTATCGATACCAAGAGGAA
1 GGTATCGATACCAAGAGGAA
864998 GGTATCGATACCAAGAGGAA
1 GGTATCGATACCAAGAGGAA
865018 GGTATCGATACCAAGAGGAA
1 GGTATCGATACCAAGAGGAA
865038 GGTATCGATACCAAGAGGAA
1 GGTATCGATACCAAGAGGAA
865058 GGTATCGATACCA
1 GGTATCGATACCA
865071 TTATTGAAAA
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 73 1.00
ACGTcount: A:0.39, C:0.16, G:0.29, T:0.16
Consensus pattern (20 bp):
GGTATCGATACCAAGAGGAA
Found at i:865792 original size:54 final size:54
Alignment explanation
Indices: 865472--865776 Score: 450
Period size: 54 Copynumber: 5.6 Consensus size: 54
865462 GGCACTACAC
*
865472 GTGCAACCCACAGAATTCATAATAAGTTTATGAACGACCGTATCGGCACTATAT
1 GTGCAACCCACAGAATTCATAATAAGTTTATGAACGACCGTATCGGCACTATGT
** * *
865526 GTGCAACCCATGGAATTCATAATAAGTTTATGAACGACCATATCAGCACTATGT
1 GTGCAACCCACAGAATTCATAATAAGTTTATGAACGACCGTATCGGCACTATGT
* *
865580 GTGCAACCCACAGAATTCATAATAAGTTTATGAACGACCGCATCGACACTATGT
1 GTGCAACCCACAGAATTCATAATAAGTTTATGAACGACCGTATCGGCACTATGT
* *
865634 GTGCAACCCACAGAATTCATAATAAGTTTATGAATGATCGTA-CTGGCACTATGT
1 GTGCAACCCACAGAATTCATAATAAGTTTATGAACGACCGTATC-GGCACTATGT
* * * *
865688 GTACAATCCACAGAATTCATAATAAGTTTATGAACGACCATATCGGTACTATGT
1 GTGCAACCCACAGAATTCATAATAAGTTTATGAACGACCGTATCGGCACTATGT
* * *
865742 GTACAACCCACAGAATTCATAATGAGATTATGAAC
1 GTGCAACCCACAGAATTCATAATAAGTTTATGAAC
865777 TATCGTATTG
Statistics
Matches: 225, Mismatches: 24, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
53 1 0.00
54 223 0.99
55 1 0.00
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.27
Consensus pattern (54 bp):
GTGCAACCCACAGAATTCATAATAAGTTTATGAACGACCGTATCGGCACTATGT
Found at i:865818 original size:108 final size:107
Alignment explanation
Indices: 865472--865818 Score: 446
Period size: 108 Copynumber: 3.2 Consensus size: 107
865462 GGCACTACAC
* *
865472 GTGCAACCCACAGAATTCATAATAAGTTTATGAACGACCGTATCGGCACTATATGTGCAACCCAT
1 GTGCAACCCACAGAATTCATAATAAGTTTATGAACGACCGTATCGGCACTATGTGTGCAACCCAC
* * * * *
865537 GGAATTCATAATAAGTTTATGAACGACCATATCAGCACTATGT
66 AGAATTCATAATAAGTTTATGAACTATCGTAT-TGCACTATGT
* *
865580 GTGCAACCCACAGAATTCATAATAAGTTTATGAACGACCGCATCGACACTATGTGTGCAACCCAC
1 GTGCAACCCACAGAATTCATAATAAGTTTATGAACGACCGTATCGGCACTATGTGTGCAACCCAC
*
865645 AGAATTCATAATAAGTTTATGAA-TGATCGTACTGGCACTATGT
66 AGAATTCATAATAAGTTTATGAACT-ATCGTA-TTGCACTATGT
* * * * *
865688 GTACAATCCACAGAATTCATAATAAGTTTATGAACGACCATATCGGTACTATGTGTACAACCCAC
1 GTGCAACCCACAGAATTCATAATAAGTTTATGAACGACCGTATCGGCACTATGTGTGCAACCCAC
* * * *
865753 AGAATTCATAATGAGATTATGAACTATCGTATTGTTACTACGT
66 AGAATTCATAATAAGTTTATGAACTATCGTATTG-CACTATGT
* *
865796 GTGCACCCCAAAGAACTT-ATAAT
1 GTGCAACCCACAGAA-TTCATAAT
865819 GTTTTGAAAA
Statistics
Matches: 209, Mismatches: 25, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
107 2 0.01
108 203 0.97
109 4 0.02
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (107 bp):
GTGCAACCCACAGAATTCATAATAAGTTTATGAACGACCGTATCGGCACTATGTGTGCAACCCAC
AGAATTCATAATAAGTTTATGAACTATCGTATTGCACTATGT
Found at i:867336 original size:41 final size:40
Alignment explanation
Indices: 867291--867417 Score: 110
Period size: 41 Copynumber: 3.3 Consensus size: 40
867281 CTAAAGAGTG
867291 GTATCGATATTGTAGTTATGGTATCGATACTAAGGGTAACA
1 GTATCGATATTGTAGTTATGGTATCGATACTAA-GGTAACA
** *
867332 GTATCGATA--CAAG-TATTGGTA-C--T-CTAAGG-AGCA
1 GTATCGATATTGTAGTTA-TGGTATCGATACTAAGGTAACA
* *
867365 TTATCGATATTGTAGCTT-TGGTATCGATACTAAAGGTAAAA
1 GTATCGATATTGTAG-TTATGGTATCGATACT-AAGGTAACA
867406 GTATCGATATTG
1 GTATCGATATTG
867418 GGATTAATGT
Statistics
Matches: 66, Mismatches: 9, Indels: 22
0.68 0.09 0.23
Matches are distributed among these distances:
33 11 0.17
34 2 0.03
35 11 0.17
36 2 0.03
37 1 0.02
38 4 0.06
39 9 0.14
40 4 0.06
41 22 0.33
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.34
Consensus pattern (40 bp):
GTATCGATATTGTAGTTATGGTATCGATACTAAGGTAACA
Found at i:868910 original size:19 final size:19
Alignment explanation
Indices: 868870--868910 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
868860 TGTAAGGGTT
*
868870 GTATCGATACCTTGAGGAG
1 GTATCGATACCTTGAAGAG
868889 GTATCGATACCCTTGAAG-G
1 GTATCGATA-CCTTGAAGAG
868908 GTA
1 GTA
868911 GTATCGGTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.27
Consensus pattern (19 bp):
GTATCGATACCTTGAAGAG
Found at i:868921 original size:22 final size:20
Alignment explanation
Indices: 868864--868941 Score: 63
Period size: 20 Copynumber: 3.9 Consensus size: 20
868854 AGTAACTGTA
*
868864 AGGGTTGTATCGATACC-TT
1 AGGGTAGTATCGATACCATT
*
868883 -GAGG-AGGTATCGATACCCTT
1 AG-GGTA-GTATCGATACCATT
*
868903 GAAGGGTAGTATCGGTACCATT
1 --AGGGTAGTATCGATACCATT
*
868925 AGGGTAGTACCGATACC
1 AGGGTAGTATCGATACC
868942 TTCAAGCATG
Statistics
Matches: 47, Mismatches: 5, Indels: 13
0.72 0.08 0.20
Matches are distributed among these distances:
18 1 0.02
19 13 0.28
20 17 0.36
22 14 0.30
23 2 0.04
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.27
Consensus pattern (20 bp):
AGGGTAGTATCGATACCATT
Found at i:869556 original size:23 final size:23
Alignment explanation
Indices: 869497--869584 Score: 85
Period size: 23 Copynumber: 3.9 Consensus size: 23
869487 CCGGGAAAAA
869497 TATGTGGCACTTCGGTGCAAACC
1 TATGTGGCACTTCGGTGCAAACC
* **
869520 CATGTCACACTTCGGTGCAAACC
1 TATGTGGCACTTCGGTGCAAACC
*
869543 TATGTGGTCA-TTCGG-G-ACAA-T
1 TATGTGG-CACTTCGGTGCA-AACC
*
869564 TATGTGGCACTTCAGTGCAAA
1 TATGTGGCACTTCGGTGCAAA
869585 TTACGAGCTG
Statistics
Matches: 52, Mismatches: 8, Indels: 11
0.73 0.11 0.15
Matches are distributed among these distances:
20 2 0.04
21 12 0.23
22 6 0.12
23 30 0.58
24 2 0.04
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.27
Consensus pattern (23 bp):
TATGTGGCACTTCGGTGCAAACC
Found at i:870391 original size:22 final size:22
Alignment explanation
Indices: 870365--870434 Score: 77
Period size: 22 Copynumber: 3.2 Consensus size: 22
870355 AGTACCAAGA
*
870365 CACTTTAGTATCAGTGTTAATG
1 CACTTTAGTATCAGTGTTAAGG
* ** * *
870387 TACTTCCGTATCAGTGCTGAGG
1 CACTTTAGTATCAGTGTTAAGG
*
870409 CACTTTAGTATCAGTGTTAAAG
1 CACTTTAGTATCAGTGTTAAGG
870431 CACT
1 CACT
870435 GTTGTTAATC
Statistics
Matches: 36, Mismatches: 12, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.36
Consensus pattern (22 bp):
CACTTTAGTATCAGTGTTAAGG
Found at i:871349 original size:15 final size:15
Alignment explanation
Indices: 871329--871360 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
871319 AGCTATAATA
871329 ATTAACATTAATTTG
1 ATTAACATTAATTTG
871344 ATTAACATTAATTTG
1 ATTAACATTAATTTG
871359 AT
1 AT
871361 GTAAAGTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (15 bp):
ATTAACATTAATTTG
Found at i:877416 original size:37 final size:37
Alignment explanation
Indices: 877363--877466 Score: 154
Period size: 37 Copynumber: 2.8 Consensus size: 37
877353 CCTTTTCGTC
877363 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
877400 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
877437 CTACTATGATTTAAACTCCTAAAGATAGGA
1 CTACTAGGATTCAAACTCCTAAAAATAGGA
877467 ACCACAAGCA
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.29
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:878052 original size:24 final size:23
Alignment explanation
Indices: 878025--878132 Score: 88
Period size: 22 Copynumber: 4.9 Consensus size: 23
878015 CTTTGCATTT
878025 TTATTATTACTATTATATTTATTA
1 TTATTATTACTATTATATTTA-TA
* *
878049 TTATTTTTACTATTATATTT-TCC
1 TTATTATTACTATTATATTTAT-A
*
878072 TT-TTATT-CTACT-TATTTATA
1 TTATTATTACTATTATATTTATA
878092 TTATATATGTA-TATT-T-TTTATA
1 TTAT-TAT-TACTATTATATTTATA
*
878114 TT-TTATTATTATTATATTT
1 TTATTATTACTATTATATTT
878133 TTTACTTTCT
Statistics
Matches: 69, Mismatches: 6, Indels: 20
0.73 0.06 0.21
Matches are distributed among these distances:
19 2 0.03
20 14 0.20
21 8 0.12
22 19 0.28
23 7 0.10
24 19 0.28
ACGTcount: A:0.28, C:0.06, G:0.01, T:0.66
Consensus pattern (23 bp):
TTATTATTACTATTATATTTATA
Found at i:878174 original size:12 final size:11
Alignment explanation
Indices: 878152--878192 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
878142 TCTTTCTTTT
878152 TATTATTCTTG
1 TATTATTCTTG
878163 TATTATTACTTG
1 TATTATT-CTTG
* *
878175 TATTATTTTTA
1 TATTATTCTTG
878186 TATTATT
1 TATTATT
878193 TATTTTGTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
11 16 0.59
12 11 0.41
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.66
Consensus pattern (11 bp):
TATTATTCTTG
Found at i:878595 original size:2 final size:2
Alignment explanation
Indices: 878588--878630 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
878578 GTATTGTTAC
878588 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
878630 T
1 T
878631 GTAATTATCT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:883326 original size:16 final size:14
Alignment explanation
Indices: 883305--883354 Score: 68
Period size: 14 Copynumber: 3.6 Consensus size: 14
883295 AAAGGGCAAA
883305 AACAAAAAAGAAAAG
1 AACAAAAAAG-AAAG
883320 AAGCAAAAAAG-AAG
1 AA-CAAAAAAGAAAG
883334 AA-AAAAAAGAAAG
1 AACAAAAAAGAAAG
883347 AACAAAAA
1 AACAAAAA
883355 TAAAAAAGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
12 7 0.22
13 5 0.16
14 10 0.31
15 2 0.06
16 8 0.25
ACGTcount: A:0.80, C:0.06, G:0.14, T:0.00
Consensus pattern (14 bp):
AACAAAAAAGAAAG
Found at i:883362 original size:16 final size:16
Alignment explanation
Indices: 883301--883364 Score: 69
Period size: 16 Copynumber: 4.0 Consensus size: 16
883291 ACAAAAAGGG
883301 CAAAAACAAAAAAGAA
1 CAAAAACAAAAAAGAA
*
883317 -AAGAAGCAAAAAAGAA
1 CAA-AAACAAAAAAGAA
*
883333 GAAAAA-AAAGAAAGAA
1 CAAAAACAAA-AAAGAA
*
883349 CAAAAATAAAAAAGAA
1 CAAAAACAAAAAAGAA
883365 AAAGGGACAA
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
15 5 0.12
16 31 0.76
17 5 0.12
ACGTcount: A:0.80, C:0.06, G:0.12, T:0.02
Consensus pattern (16 bp):
CAAAAACAAAAAAGAA
Found at i:884046 original size:22 final size:22
Alignment explanation
Indices: 883971--884047 Score: 109
Period size: 22 Copynumber: 3.5 Consensus size: 22
883961 GCTACCCCAT
*
883971 CAAACCGTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
* *
883993 CAAACCTATGAGCATCACATGC
1 CAAACCTTTGAGCATCAAATGC
884015 CAAACCTTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
* *
884037 TAAACATTTGA
1 CAAACCTTTGA
884048 CCAAACATAA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 48 1.00
ACGTcount: A:0.38, C:0.26, G:0.14, T:0.22
Consensus pattern (22 bp):
CAAACCTTTGAGCATCAAATGC
Found at i:885914 original size:106 final size:106
Alignment explanation
Indices: 884956--885913 Score: 1468
Period size: 106 Copynumber: 9.0 Consensus size: 106
884946 ATATCGTGCC
* * * ** *
884956 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGATGGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
885021 AAATTCAGAGCCAATTTTAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
885062 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACTGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
885127 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
885168 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAATAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
885233 AATTTTAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * *
885274 ACTCGAGACAACTCAAGTTCAACTTAACGACGAAGGGACCGCTGGTTGTCAACAAATAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* ** *
885339 GATTTTGGAGCCAATTTCAACTTCACAGCGAAAGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
885380 ACTCCAGACAACGCAAGTTCAACTTCACGAAGAAGGGACCACTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
885445 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGAATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
885486 ACTCCAGACAAAGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
885551 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
885592 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGATCGCTGGTTGTCAGCAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
885657 AATTTCAGAGCCAATTTCAACTTCACAGCAAAAGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
885698 ACTCGAGACAACGCAAGTTCAACTTCACGATGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * *
885763 AATTTCGGAGCCAATTTCAACTTCACAACAAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * * *
885804 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * *
885869 GATTCCAGAGCCAATTTCAACTTCAC-GACGGAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAG-CGAAGGATATTGG
885910 ACTC
1 ACTC
885914 GGAACAATGC
Statistics
Matches: 785, Mismatches: 66, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
106 785 1.00
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.22
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:886697 original size:37 final size:37
Alignment explanation
Indices: 886644--886748 Score: 149
Period size: 37 Copynumber: 2.8 Consensus size: 37
886634 CCTTTTCGTC
*
886644 CTACTAGGATTCAAACTCCTAAAAATATGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* *
886681 -TGGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CT-ACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* *
886718 CTACTATGATTTAAACTCCTAAAAATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
886749 CCACAAGCAC
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
36 1 0.02
37 58 0.97
38 1 0.02
ACGTcount: A:0.41, C:0.15, G:0.14, T:0.30
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:887327 original size:24 final size:23
Alignment explanation
Indices: 887300--887407 Score: 88
Period size: 22 Copynumber: 4.9 Consensus size: 23
887290 CTTTGCATTT
887300 TTATTATTACTATTATATTTATTA
1 TTATTATTACTATTATATTTA-TA
* *
887324 TTATTTTTACTATTATATTT-TCC
1 TTATTATTACTATTATATTTAT-A
*
887347 TT-TTATT-CTACT-TATTTATA
1 TTATTATTACTATTATATTTATA
887367 TTATATATGTA-TATT-T-TTTATA
1 TTAT-TAT-TACTATTATATTTATA
*
887389 TT-TTATTATTATTATATTT
1 TTATTATTACTATTATATTT
887408 TTTACTTTCT
Statistics
Matches: 69, Mismatches: 6, Indels: 20
0.73 0.06 0.21
Matches are distributed among these distances:
19 2 0.03
20 14 0.20
21 8 0.12
22 19 0.28
23 7 0.10
24 19 0.28
ACGTcount: A:0.28, C:0.06, G:0.01, T:0.66
Consensus pattern (23 bp):
TTATTATTACTATTATATTTATA
Found at i:887449 original size:12 final size:11
Alignment explanation
Indices: 887427--887467 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
887417 TCTTTCTTTT
887427 TATTATTCTTG
1 TATTATTCTTG
887438 TATTATTACTTG
1 TATTATT-CTTG
* *
887450 TATTATTTTTA
1 TATTATTCTTG
887461 TATTATT
1 TATTATT
887468 TATTTTGTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
11 16 0.59
12 11 0.41
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.66
Consensus pattern (11 bp):
TATTATTCTTG
Found at i:887867 original size:2 final size:2
Alignment explanation
Indices: 887860--887884 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
887850 TTATTGTTAC
887860 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 T
887885 TGTAATTATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:887987 original size:24 final size:24
Alignment explanation
Indices: 887960--888080 Score: 76
Period size: 24 Copynumber: 5.0 Consensus size: 24
887950 TTAATTTATA
887960 TATATATATATTTTTTATTTATTT
1 TATATATATATTTTTTATTTATTT
*
887984 TATATATATATATTATTCGTACTTTGTTAT
1 TATATATATAT-TT-TT--TA-TTTATT-T
* *
888014 TAT-TAT-T-TTGTTTATTTGTTT
1 TATATATATATTTTTTATTTATTT
* *
888035 TAT-T-TAT-TTTCTT-TTTCTTT
1 TATATATATATTTTTTATTTATTT
*
888055 TTTATATATATTTTATTATTTATTT
1 TATATATATATTTT-TTATTTATTT
888080 T
1 T
888081 TTTTAGATAC
Statistics
Matches: 77, Mismatches: 8, Indels: 23
0.71 0.07 0.21
Matches are distributed among these distances:
20 9 0.12
21 11 0.14
22 9 0.12
23 5 0.06
24 13 0.17
25 11 0.14
26 3 0.04
27 1 0.01
28 3 0.04
29 8 0.10
30 4 0.05
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.70
Consensus pattern (24 bp):
TATATATATATTTTTTATTTATTT
Found at i:888081 original size:24 final size:24
Alignment explanation
Indices: 887946--888081 Score: 81
Period size: 22 Copynumber: 5.7 Consensus size: 24
887936 CTTCATTTAA
* *
887946 TTTATTAATTTATATATATATATAT
1 TTTATT-ATTTATTTTTATATATAT
887971 TTT-TTATTTA-TTTTATATATA-
1 TTTATTATTTATTTTTATATATAT
*
887992 TATATTATTCGTACTTTGTTAT-TATTAT
1 TTTATTATT--TA-TTT-TTATATA-TAT
* *
888020 TTTGTTTATTT-GTTTTAT-T-TAT
1 TTT-ATTATTTATTTTTATATATAT
* *
888042 TTTCTT-TTTCTTTTTTATATATAT
1 TTTATTATTT-ATTTTTATATATAT
888066 TTTATTATTTATTTTT
1 TTTATTATTTATTTTT
888082 TTTAGATACT
Statistics
Matches: 87, Mismatches: 10, Indels: 29
0.69 0.08 0.23
Matches are distributed among these distances:
20 3 0.03
21 4 0.05
22 26 0.30
23 6 0.07
24 22 0.25
25 8 0.09
26 4 0.05
27 7 0.08
28 2 0.02
29 5 0.06
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.70
Consensus pattern (24 bp):
TTTATTATTTATTTTTATATATAT
Found at i:889246 original size:16 final size:17
Alignment explanation
Indices: 889208--889253 Score: 58
Period size: 18 Copynumber: 2.7 Consensus size: 17
889198 TGTTTTTGAG
*
889208 GGAATTGAAATCTGTGAA
1 GGAATTGGAATCTGT-AA
889226 GGAATTGGAATCTGT-A
1 GGAATTGGAATCTGTAA
*
889242 GGAATTAGAATC
1 GGAATTGGAATC
889254 CAATTCCATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
16 12 0.46
18 14 0.54
ACGTcount: A:0.37, C:0.07, G:0.28, T:0.28
Consensus pattern (17 bp):
GGAATTGGAATCTGTAA
Found at i:889880 original size:27 final size:28
Alignment explanation
Indices: 889820--889886 Score: 109
Period size: 28 Copynumber: 2.4 Consensus size: 28
889810 CCTAACCCTG
* *
889820 AACCCGACCCGAATATTATACTTTAAAA
1 AACCCGACCCGAATATCACACTTTAAAA
889848 AACCCGACCCGAATATCACAC-TTAAAA
1 AACCCGACCCGAATATCACACTTTAAAA
889875 AACCCGACCCGA
1 AACCCGACCCGA
889887 CCCGAACAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
27 18 0.49
28 19 0.51
ACGTcount: A:0.42, C:0.33, G:0.09, T:0.16
Consensus pattern (28 bp):
AACCCGACCCGAATATCACACTTTAAAA
Found at i:890135 original size:37 final size:38
Alignment explanation
Indices: 890059--890142 Score: 143
Period size: 38 Copynumber: 2.2 Consensus size: 38
890049 TTCACCCTAA
*
890059 ACCCGACCCGACCCGAATATCACACTTTAAAAAACCCG
1 ACCCGACCCAACCCGAATATCACACTTTAAAAAACCCG
*
890097 ACCCGACTCAACCCGAATATCACAC-TTAAAAAACCCG
1 ACCCGACCCAACCCGAATATCACACTTTAAAAAACCCG
890134 ACCCGACCC
1 ACCCGACCC
890143 GAACAAAATA
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
37 20 0.47
38 23 0.53
ACGTcount: A:0.37, C:0.42, G:0.10, T:0.12
Consensus pattern (38 bp):
ACCCGACCCAACCCGAATATCACACTTTAAAAAACCCG
Found at i:890278 original size:253 final size:244
Alignment explanation
Indices: 889769--890326 Score: 845
Period size: 253 Copynumber: 2.2 Consensus size: 244
889759 TATAAGGTAA
889769 AATTATATATATTTTTTTCGGGTCGGTCCGGTTTTTTTCACCCT-AACCCTGAACCCGACCCGAA
1 AATTATATATA---TTTTCGGGTCGGTCCGGTTTTTTTCACCCTAAACCC-GAACCCGACCCGAA
* *
889833 TATTATACTTTAAAAAACCCGACCCGAATATCACACTTAAAAAACCCGACCCGACCCGAACAAAA
62 TATCACACTTTAAAAAACCCGACCCGAATATCACACTTAAAAAACCCGACCCGACCCGAACAAAA
* *
889898 TAAAGGTTCATCCGACCCGACCCGAATATATGAATTAGAAATCCGACCCGACCCGACCCAAAATA
127 TAAAGGTTCATCCGACCCGACCCGAATATATGAATTAGAAATCCAACCCGACCAGACCCAAAATA
*
889963 ATAAAAAATTATTTTTATTTAATAAAAACAGTGACTTAATCCGACCCGACCCG
192 ATAAAAAAGTATTTTTATTTAATAAAAACAGTGACTTAATCCGACCCGACCCG
*
890016 AATTATATATATTTTCGGGTCGGTTCGGTTTTTTTCACCCTAAACCCG-ACCCGACCCGAATATC
1 AATTATATATATTTTCGGGTCGGTCCGGTTTTTTTCACCCTAAACCCGAACCCGACCCGAATATC
890080 ACACTTTAAAAAACCCGACCCGACTCAACCCGAATATCACACTTAAAAAACCCGACCCGACCCGA
66 ACACTTT-AAAAA----ACCCG-----ACCCGAATATCACACTTAAAAAACCCGACCCGACCCGA
*
890145 ACAAAATAAAGTTTCATCCGACCCGACCCGAATATATGAATTAGAAATCCAACCCGA-CAGACCC
121 ACAAAATAAAGGTTCATCCGACCCGACCCGAATATATGAATTAGAAATCCAACCCGACCAGACCC
* * * *
890209 GAAATAAT-AAAAAGTATTTTTATTTAATAAAAATAGTGACTTAATCTGACCCGACCTG
186 AAAATAATAAAAAAGTATTTTTATTTAATAAAAACAGTGACTTAATCCGACCCGACCCG
* *
890267 AATTATATATATTTTCGGGTCGGTCCGATTTTTTTCACCCTAAACCCGAACCTGACCCGA
1 AATTATATATATTTTCGGGTCGGTCCGGTTTTTTTCACCCTAAACCCGAACCCGACCCGA
890327 CCTGAATATC
Statistics
Matches: 285, Mismatches: 14, Indels: 19
0.90 0.04 0.06
Matches are distributed among these distances:
243 21 0.07
244 35 0.12
245 5 0.02
247 11 0.04
248 5 0.02
251 92 0.32
252 23 0.08
253 93 0.33
ACGTcount: A:0.35, C:0.27, G:0.13, T:0.25
Consensus pattern (244 bp):
AATTATATATATTTTCGGGTCGGTCCGGTTTTTTTCACCCTAAACCCGAACCCGACCCGAATATC
ACACTTTAAAAAACCCGACCCGAATATCACACTTAAAAAACCCGACCCGACCCGAACAAAATAAA
GGTTCATCCGACCCGACCCGAATATATGAATTAGAAATCCAACCCGACCAGACCCAAAATAATAA
AAAAGTATTTTTATTTAATAAAAACAGTGACTTAATCCGACCCGACCCG
Found at i:896850 original size:16 final size:17
Alignment explanation
Indices: 896829--896862 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
896819 TTTTATTATT
*
896829 ATTTAATATA-AAAATA
1 ATTTAAAATATAAAATA
896845 ATTTAAAATATAAAATA
1 ATTTAAAATATAAAATA
896862 A
1 A
896863 AAATAAAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
ATTTAAAATATAAAATA
Found at i:898621 original size:3 final size:3
Alignment explanation
Indices: 898615--898680 Score: 62
Period size: 3 Copynumber: 22.0 Consensus size: 3
898605 TTTAATTTAT
* * * * * *
898615 TTA TTA TTA TTA TTA TAA TTA TAA TAA TAA TAA TAA TTA TTA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
898662 TATA TTA TTA TTA TTA TTA
1 T-TA TTA TTA TTA TTA TTA
898681 AAAAATAATT
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.04
3 52 0.91
4 3 0.05
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (3 bp):
TTA
Found at i:900767 original size:16 final size:16
Alignment explanation
Indices: 900746--900797 Score: 63
Period size: 16 Copynumber: 3.2 Consensus size: 16
900736 TCTTTCAAAT
900746 TTTTTAT-TACTTATTA
1 TTTTTATATA-TTATTA
900762 TTTTTATATATTATTA
1 TTTTTATATATTATTA
*
900778 TTTTT-TATTTTATTTA
1 TTTTTATATATTA-TTA
900794 TTTT
1 TTTT
900798 ATTCAAGAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
15 6 0.18
16 25 0.76
17 2 0.06
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTTTATATATTATTA
Found at i:902458 original size:14 final size:14
Alignment explanation
Indices: 902417--902458 Score: 66
Period size: 14 Copynumber: 3.0 Consensus size: 14
902407 CTGGTATTCA
*
902417 CATATTTACATTTA
1 CATATTTACATTTG
*
902431 CATTTTTACATTTG
1 CATATTTACATTTG
902445 CATATTTACATTTG
1 CATATTTACATTTG
902459 TATTTTTATG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.29, C:0.14, G:0.05, T:0.52
Consensus pattern (14 bp):
CATATTTACATTTG
Found at i:902466 original size:14 final size:14
Alignment explanation
Indices: 902421--902466 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
902411 TATTCACATA
*
902421 TTTACATTTACATT
1 TTTACATTTGCATT
*
902435 TTTACATTTGCATA
1 TTTACATTTGCATT
*
902449 TTTACATTTGTATT
1 TTTACATTTGCATT
902463 TTTA
1 TTTA
902467 TGTTTGCTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.26, C:0.11, G:0.04, T:0.59
Consensus pattern (14 bp):
TTTACATTTGCATT
Found at i:906020 original size:26 final size:26
Alignment explanation
Indices: 905991--906043 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
905981 TCTTATACTC
*
905991 ATCCAGCAAAGAAAGAAGGAAAAAAA
1 ATCCAGCAAAGAAAGAAAGAAAAAAA
906017 ATCCAGCAAAGAAAGAAAGAAAAAAA
1 ATCCAGCAAAGAAAGAAAGAAAAAAA
906043 A
1 A
906044 AGATGAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.68, C:0.11, G:0.17, T:0.04
Consensus pattern (26 bp):
ATCCAGCAAAGAAAGAAAGAAAAAAA
Found at i:906054 original size:27 final size:24
Alignment explanation
Indices: 906024--906081 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 24
906014 AAAATCCAGC
906024 AAAGAAAGAAAGAAAAAAAAAGATGAA
1 AAAGAAA-AAAGAAAAAAAAAG--GAA
*
906051 AAAGGAAAAATGAAAAAAAAAGGAA
1 AAA-GAAAAAAGAAAAAAAAAGGAA
906076 AAAGAA
1 AAAGAA
906082 GAAGGGGAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
24 3 0.10
25 6 0.21
27 16 0.55
28 4 0.14
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (24 bp):
AAAGAAAAAAGAAAAAAAAAGGAA
Found at i:908444 original size:114 final size:114
Alignment explanation
Indices: 908244--908581 Score: 514
Period size: 114 Copynumber: 3.0 Consensus size: 114
908234 GTGCCATGTT
*
908244 CTCGTAGTAGAAATAAGGAGCCCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATTTG
1 CTCGTAGTAGAAATAAGGAGCCCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
*
908309 GTTTGGTATAAACCCCAAAACCAATCATTAGATTTGAAAGATGAATTTG
66 GTTTGGTATGAACCCCAAAACCAATCATTAGATTTGAAAGATGAATTTG
* * * *
908358 CTCGTAGTCGAAATAAGGAGCCCCAATAGAATCTTCTGAAAGTGTTCTTTGAGTTATTTGATCTG
1 CTCGTAGTAGAAATAAGGAGCCCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
908423 GTTTGGTATGAACCCCAAAACCAATCATTAGATTTGAAAGATGAATTTG
66 GTTTGGTATGAACCCCAAAACCAATCATTAGATTTGAAAGATGAATTTG
* * * * *
908472 CTCATAGTAGAAATAAGAAGACCCAATAGCATCTTGTGGAAGTATTCTTTGAGTTATCTGATCTG
1 CTCGTAGTAGAAATAAGGAGCCCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
* * * * * * *
908537 GTTCGGTAGGAACCCCAGAATCAATCATTGGAATTGAAATATGAA
66 GTTTGGTATGAACCCCAAAACCAATCATTAGATTTGAAAGATGAA
908582 CTGCATGATC
Statistics
Matches: 202, Mismatches: 22, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
114 202 1.00
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (114 bp):
CTCGTAGTAGAAATAAGGAGCCCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
GTTTGGTATGAACCCCAAAACCAATCATTAGATTTGAAAGATGAATTTG
Found at i:910794 original size:50 final size:50
Alignment explanation
Indices: 910648--910801 Score: 159
Period size: 50 Copynumber: 3.0 Consensus size: 50
910638 ATAATTGAGA
*
910648 AATCTGAGCAGAAGCCACAGAAAAGGATGAATGTGTTGTCAAATGCTTTAC
1 AATCTGAGCAGAAGCCACAGAAAA-GATGAATGTGTTGTCAAATGTTTTAC
* * * * * *
910699 GAAATCCGGGCAGGAGCCGTA-AGAAAGGAAGAATGTGTTTTCAAATGTTTTAC
1 --AATCTGAGCAGAAGCC--ACAGAAAAGATGAATGTGTTGTCAAATGTTTTAC
* *
910752 -ATCTGAGCAGAAACCACAGGAAAAGATGAATGTATTGTCAAATGTTTTAC
1 AATCTGAGCAGAAGCCACA-GAAAAGATGAATGTGTTGTCAAATGTTTTAC
910802 GAACCAGTGA
Statistics
Matches: 82, Mismatches: 15, Indels: 11
0.76 0.14 0.10
Matches are distributed among these distances:
48 1 0.01
49 1 0.01
50 38 0.46
53 36 0.44
54 5 0.06
55 1 0.01
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.25
Consensus pattern (50 bp):
AATCTGAGCAGAAGCCACAGAAAAGATGAATGTGTTGTCAAATGTTTTAC
Found at i:911201 original size:22 final size:22
Alignment explanation
Indices: 911175--911248 Score: 121
Period size: 22 Copynumber: 3.4 Consensus size: 22
911165 TACACTCTTC
911175 AAAGATGATAAATTCTCTTTTT
1 AAAGATGATAAATTCTCTTTTT
*
911197 AAAGATGATATATTCTCTTTTT
1 AAAGATGATAAATTCTCTTTTT
* *
911219 AAAGATGACAAATTCTCTTTTC
1 AAAGATGATAAATTCTCTTTTT
911241 AAAGATGA
1 AAAGATGA
911249 AAGCTTTATC
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:0.38, C:0.11, G:0.11, T:0.41
Consensus pattern (22 bp):
AAAGATGATAAATTCTCTTTTT
Found at i:911848 original size:113 final size:112
Alignment explanation
Indices: 911650--911982 Score: 532
Period size: 113 Copynumber: 3.0 Consensus size: 112
911640 GCAAAAATTT
*
911650 AAATCCATCA-TTCAATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAA
1 AAATCCATCACTT-GATGGATCAA-ATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAA
*
911714 GAAGGAAGAAGAAGTTCATAATGAGAAGAACTCGTTCAACCTTTTGCTC
64 GAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTC
*
911763 AAATCCATCACTTGATGGATCCAAATTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAG
1 AAATCCATCACTTGATGGAT-CAAATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
* *
911828 AAGGAAGAAGAAGTTCATAATGACAAGAGCTTGTTCAACCTTTTGCTC
65 AAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTC
*
911876 AAATCCATCACTTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCCATCACTTGATGGATCA-AATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
*
911941 -A-G--GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
65 AAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
911983 ATGACTCTAT
Statistics
Matches: 207, Mismatches: 10, Indels: 10
0.91 0.04 0.04
Matches are distributed among these distances:
109 37 0.18
111 1 0.00
112 3 0.01
113 161 0.78
114 5 0.02
ACGTcount: A:0.38, C:0.17, G:0.18, T:0.26
Consensus pattern (112 bp):
AAATCCATCACTTGATGGATCAAATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTC
Found at i:911965 original size:17 final size:17
Alignment explanation
Indices: 911911--911965 Score: 51
Period size: 17 Copynumber: 3.1 Consensus size: 17
911901 TTTCCAGAGA
911911 AAGTTCATAATGAGAAG
1 AAGTTCATAATGAGAAG
*
911928 AA-CTCATCTGAA-GAGGAAG
1 AAGTTCA--T-AATGA-GAAG
911947 AAGTTCATAATGAGAAG
1 AAGTTCATAATGAGAAG
911964 AA
1 AA
911966 TTTGTTCAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 12
0.68 0.05 0.27
Matches are distributed among these distances:
16 3 0.10
17 10 0.33
18 6 0.20
19 8 0.27
20 3 0.10
ACGTcount: A:0.47, C:0.09, G:0.24, T:0.20
Consensus pattern (17 bp):
AAGTTCATAATGAGAAG
Found at i:912229 original size:113 final size:113
Alignment explanation
Indices: 912031--912290 Score: 421
Period size: 113 Copynumber: 2.3 Consensus size: 113
912021 TTTCCAGAGA
* * *
912031 AAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATT
1 AAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTCGAATTCATCACTCGATGGATCAACATT
****
912096 ACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
66 ACCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
* *
912144 AAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTCGAATTCATCACTCGATGGATCAACTTT
1 AAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTCGAATTCATCACTCGATGGATCAACATT
*
912209 TCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
66 ACCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
912257 AAGTTCATAATGAGAAGAACTTGTTCAATCTTTT
1 AAGTTCATAATGAGAAGAACTTGTTCAA-CTTTT
912291 GCATGATTCT
Statistics
Matches: 136, Mismatches: 10, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
113 131 0.96
114 5 0.04
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.29
Consensus pattern (113 bp):
AAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTCGAATTCATCACTCGATGGATCAACATT
ACCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
Found at i:912573 original size:3 final size:3
Alignment explanation
Indices: 912565--912639 Score: 82
Period size: 3 Copynumber: 25.0 Consensus size: 3
912555 ATTTATTTAT
* * * *
912565 TTA TTA TTA TTA TTA TCA TTA TAA TAA TAA TTA TTA TTA TTA -TA TATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
912613 TTA TTA -TA TATA TTA TTA TTA TTA TTA
1 TTA TTA TTA T-TA TTA TTA TTA TTA TTA
912640 AAAAATAATT
Statistics
Matches: 64, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
2 4 0.06
3 54 0.84
4 6 0.09
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:914108 original size:22 final size:23
Alignment explanation
Indices: 914064--914117 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 23
914054 TTTCATTATT
*
914064 ATTATATTAAAATAAATTATTTTT
1 ATTAT-TTAAAATAAATTATTTTA
*
914088 ATTTTTTAAAA-AAATGT-TTTTA
1 ATTATTTAAAATAAAT-TATTTTA
914110 ATTATTTA
1 ATTATTTA
914118 TTTTATTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 15 0.58
23 7 0.27
24 4 0.15
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (23 bp):
ATTATTTAAAATAAATTATTTTA
Found at i:918725 original size:45 final size:45
Alignment explanation
Indices: 918655--918763 Score: 148
Period size: 45 Copynumber: 2.4 Consensus size: 45
918645 GCATTTTTAT
** *
918655 TTATGGCATTATTTCATGTCAATAATGCACCCATATGCATTTCAA
1 TTATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTTCAA
* * *
918700 TTAT-GCTATCCTTTCATGCCGATAATGCACCCATATGCATTTTAT
1 TTATGGC-ATCCTTTCATGCCAATAATGCACCCATATGCATTTCAA
918745 TTATGGCATCCTTTCATGC
1 TTATGGCATCCTTTCATGC
918764 TTTTTTATAC
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
44 2 0.04
45 52 0.93
46 2 0.04
ACGTcount: A:0.26, C:0.23, G:0.12, T:0.39
Consensus pattern (45 bp):
TTATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTTCAA
Found at i:918926 original size:68 final size:68
Alignment explanation
Indices: 918852--918988 Score: 220
Period size: 68 Copynumber: 2.0 Consensus size: 68
918842 TAGTCTTTTA
* * * *
918852 CTCAAAGGAATTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTA
1 CTCAAAGGAACTTAGCCTTTCATCTAACTGACATAATTGACACCTTTATGTCAAATACACAGCTA
918917 GGC
66 GGC
* *
918920 CTCAAAGGCACTTAGCCTTTCATCTAACTGACATAATTGATACCTTTATGTCAAATACACAGCTA
1 CTCAAAGGAACTTAGCCTTTCATCTAACTGACATAATTGACACCTTTATGTCAAATACACAGCTA
918985 GGC
66 GGC
918988 C
1 C
918989 ATTAATCTTT
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
68 63 1.00
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.29
Consensus pattern (68 bp):
CTCAAAGGAACTTAGCCTTTCATCTAACTGACATAATTGACACCTTTATGTCAAATACACAGCTA
GGC
Found at i:919403 original size:54 final size:54
Alignment explanation
Indices: 919345--919645 Score: 494
Period size: 54 Copynumber: 5.6 Consensus size: 54
919335 AACAACTCAT
* * *
919345 GATGAATTCCGTGAAATGTACACTTAGTGTCGAAACGGTTATTCTTCCACATAG
1 GATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAG
* *
919399 GATGAATTCCGTGAAATGCACACATAGTGCCAAAACGGTTATTCATCCACATAG
1 GATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAG
* * **
919453 GATGAATTCCGTGAAATGCATACTTAGTGCCAAAATAGTTATTCATCCACATAG
1 GATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAG
*
919507 GATGAATTCCGTGAAATGCACACTTAGTGCTGAAACGGTTATTCATCCACATAG
1 GATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAG
*
919561 GATGAATTCCGTGAAATGCACACTTAGTGCCGAAACTGTTATTCATCCACATAG
1 GATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAG
*
919615 GATGAATTCCATGAAATGCACACTTAGTGCC
1 GATGAATTCCGTGAAATGCACACTTAGTGCC
919646 TATTTGGTAA
Statistics
Matches: 230, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 230 1.00
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.28
Consensus pattern (54 bp):
GATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAG
Done.