Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002616.1 Hibiscus syriacus cultivar Beakdansim tig00005294_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: 1287628
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 7
Found at i:691502 original size:2 final size:2
Alignment explanation
Indices: 691497--691536 Score: 50
Period size: 2 Copynumber: 21.5 Consensus size: 2
691487 TATAAAAAAC
*
691497 AT AT AT AT AT AT AT AT AT AC AT AT A- AT AT A- AT AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
691536 A
1 A
691537 AAAGAGAGAG
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
1 3 0.09
2 30 0.91
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:692558 original size:19 final size:19
Alignment explanation
Indices: 692534--692573 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
692524 GGAATGCTAG
692534 GGTTCTAAAAACCCTAGCT
1 GGTTCTAAAAACCCTAGCT
*
692553 GGTTCTAGAAACCCTAGCT
1 GGTTCTAAAAACCCTAGCT
692572 GG
1 GG
692574 CTGGTCTGCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.25
Consensus pattern (19 bp):
GGTTCTAAAAACCCTAGCT
Found at i:693434 original size:99 final size:100
Alignment explanation
Indices: 693281--693482 Score: 284
Period size: 99 Copynumber: 2.0 Consensus size: 100
693271 AAAATTGACT
* *
693281 TTGAAACTGGAAAGTTATTTGTTGATAGTCAGACGCCCCTTCTCCGTGAAGTTGAGCTTGTGCTG
1 TTGAAACTGGAAAGTTATTTGTTGACAATCAGACGCCCCTTCTCCGTGAAGTTGAGCTTGTGCTG
* *
693346 TCTTGAG-CCTAATATCATTCGTTGTGAAGTTGAGA
66 TCTTGAGTCC-AATATCATTCGATGTGAAGTTGAAA
* * * *
693381 TTGAATCT-GAAAGTTGTTTGTTGACAATCAGTCGCCCCTTCGT-CGTGAAGTTGAGCTTGTGTT
1 TTGAAACTGGAAAGTTATTTGTTGACAATCAGACGCCCCTTC-TCCGTGAAGTTGAGCTTGTGCT
*
693444 GTCTTGGGTCCAATATCATTCGATGTGAAGTTGAAA
65 GTCTTGAGTCCAATATCATTCGATGTGAAGTTGAAA
693480 TTG
1 TTG
693483 GGAAGCCCCT
Statistics
Matches: 91, Mismatches: 9, Indels: 5
0.87 0.09 0.05
Matches are distributed among these distances:
99 81 0.89
100 10 0.11
ACGTcount: A:0.22, C:0.16, G:0.25, T:0.36
Consensus pattern (100 bp):
TTGAAACTGGAAAGTTATTTGTTGACAATCAGACGCCCCTTCTCCGTGAAGTTGAGCTTGTGCTG
TCTTGAGTCCAATATCATTCGATGTGAAGTTGAAA
Found at i:694705 original size:14 final size:15
Alignment explanation
Indices: 694681--694713 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
694671 CACCCTAAAC
694681 GTTTTTCTTTTTCTT
1 GTTTTTCTTTTTCTT
694696 GTTTTT-TTTTTCTT
1 GTTTTTCTTTTTCTT
694710 -TTTT
1 GTTTT
694714 CCCAACCTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 4 0.22
14 8 0.44
15 6 0.33
ACGTcount: A:0.00, C:0.09, G:0.06, T:0.85
Consensus pattern (15 bp):
GTTTTTCTTTTTCTT
Found at i:705156 original size:3 final size:3
Alignment explanation
Indices: 705148--705199 Score: 86
Period size: 3 Copynumber: 17.3 Consensus size: 3
705138 CAAAATATAT
**
705148 ATA ATA ATA ATA ATA ATA ATA ATA ACG ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
705196 ATA A
1 ATA A
705200 AACATATATA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:712519 original size:20 final size:19
Alignment explanation
Indices: 712492--712530 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
712482 AACAAAATAA
712492 TACAAAAAATGT-TAAAATG
1 TACAAAAAAT-TCTAAAATG
712511 TACATAAAAATTCTAAAATG
1 TACA-AAAAATTCTAAAATG
712531 AAACAAAGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.56, C:0.08, G:0.08, T:0.28
Consensus pattern (19 bp):
TACAAAAAATTCTAAAATG
Found at i:713919 original size:24 final size:24
Alignment explanation
Indices: 713875--713920 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
713865 AAGAGATCAT
*
713875 TTTAGTTTTTTTAGTATTTAAACG
1 TTTAGTTTTTTTAGTAATTAAACG
*
713899 TTTA-TTTTTTTATTAAATTAAA
1 TTTAGTTTTTTTAGT-AATTAAA
713921 TTAATGTACA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.61
Consensus pattern (24 bp):
TTTAGTTTTTTTAGTAATTAAACG
Found at i:716002 original size:21 final size:21
Alignment explanation
Indices: 715960--716002 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
715950 TTTTCGGGCT
* * *
715960 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
715981 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
716002 A
1 A
716003 CGAATATGAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:716120 original size:66 final size:67
Alignment explanation
Indices: 715982--716131 Score: 241
Period size: 66 Copynumber: 2.3 Consensus size: 67
715972 ACCCATTCAA
*
715982 GGGGAACCGATACCCCCTCAACGAATATGAACTTCCAGTATACTAGAGGGGAATCGATACCCCCA
1 GGGGAACCGATACCCCCTCAACGAATATGAACTTCCAGAATACTAGAGGGGAATCGATACCCCCA
716047 GG
66 GG
* *
716049 GGGGAACCGATACCCCCTCAACGAATATGAA-TTCCAGAATGCTAGTGGGGAATCGATA-CCCCA
1 GGGGAACCGATACCCCCTCAACGAATATGAACTTCCAGAATACTAGAGGGGAATCGATACCCCCA
716112 GGG
66 -GG
*
716115 GGGGAACCGATTCCCCC
1 GGGGAACCGATACCCCC
716132 ATGAAAAAAA
Statistics
Matches: 78, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
65 5 0.06
66 42 0.54
67 31 0.40
ACGTcount: A:0.29, C:0.29, G:0.26, T:0.16
Consensus pattern (67 bp):
GGGGAACCGATACCCCCTCAACGAATATGAACTTCCAGAATACTAGAGGGGAATCGATACCCCCA
GG
Found at i:716809 original size:23 final size:23
Alignment explanation
Indices: 716743--716801 Score: 102
Period size: 22 Copynumber: 2.6 Consensus size: 23
716733 ATCATTATAT
*
716743 GGCACTACGGTGCAATTCTAC-G
1 GGCACTTCGGTGCAATTCTACGG
716765 GGCACTTCGGTGCAATTCTACGG
1 GGCACTTCGGTGCAATTCTACGG
716788 GGCACTTCGGTGCA
1 GGCACTTCGGTGCA
716802 TTTATACGAG
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
22 20 0.57
23 15 0.43
ACGTcount: A:0.19, C:0.27, G:0.31, T:0.24
Consensus pattern (23 bp):
GGCACTTCGGTGCAATTCTACGG
Found at i:722877 original size:21 final size:21
Alignment explanation
Indices: 722835--722877 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
722825 TTTTCGGGCT
* * *
722835 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
722856 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
722877 A
1 A
722878 CGAATATGAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:722995 original size:66 final size:67
Alignment explanation
Indices: 722857--723006 Score: 241
Period size: 66 Copynumber: 2.3 Consensus size: 67
722847 ACCCATTCAA
*
722857 GGGGAACCGATACCCCCTCAACGAATATGAACTTCCAGTATACTAGAGGGGAATCGATACCCCCA
1 GGGGAACCGATACCCCCTCAACGAATATGAACTTCCAGAATACTAGAGGGGAATCGATACCCCCA
722922 GG
66 GG
* *
722924 GGGGAACCGATACCCCCTCAACGAATATGAA-TTCCAGAATGCTAGTGGGGAATCGATA-CCCCA
1 GGGGAACCGATACCCCCTCAACGAATATGAACTTCCAGAATACTAGAGGGGAATCGATACCCCCA
722987 GGG
66 -GG
*
722990 GGGGAACCGATTCCCCC
1 GGGGAACCGATACCCCC
723007 ATGAAAAAAA
Statistics
Matches: 78, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
65 5 0.06
66 42 0.54
67 31 0.40
ACGTcount: A:0.29, C:0.29, G:0.26, T:0.16
Consensus pattern (67 bp):
GGGGAACCGATACCCCCTCAACGAATATGAACTTCCAGAATACTAGAGGGGAATCGATACCCCCA
GG
Found at i:723684 original size:23 final size:23
Alignment explanation
Indices: 723618--723676 Score: 102
Period size: 22 Copynumber: 2.6 Consensus size: 23
723608 ATCATTATAT
*
723618 GGCACTACGGTGCAATTCTAC-G
1 GGCACTTCGGTGCAATTCTACGG
723640 GGCACTTCGGTGCAATTCTACGG
1 GGCACTTCGGTGCAATTCTACGG
723663 GGCACTTCGGTGCA
1 GGCACTTCGGTGCA
723677 TTTATACGAG
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
22 20 0.57
23 15 0.43
ACGTcount: A:0.19, C:0.27, G:0.31, T:0.24
Consensus pattern (23 bp):
GGCACTTCGGTGCAATTCTACGG
Found at i:726491 original size:2 final size:2
Alignment explanation
Indices: 726484--726523 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
726474 ATGATTTATG
726484 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
726524 GTTTATATGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:728567 original size:32 final size:30
Alignment explanation
Indices: 728526--728599 Score: 94
Period size: 32 Copynumber: 2.4 Consensus size: 30
728516 GAGTCGAGGG
* *
728526 ATTACCTATGTCTTTCGGGACGTATGGACAGA
1 ATTACCTATGTCTTTCGAGACATATGGAC--A
*
728558 ATTACCTATGTCTTTTGAGACATATGGACA
1 ATTACCTATGTCTTTCGAGACATATGGACA
728588 ATATACCTATGT
1 AT-TACCTATGT
728600 TCTAAGGAGC
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
30 3 0.08
31 9 0.24
32 26 0.68
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (30 bp):
ATTACCTATGTCTTTCGAGACATATGGACA
Found at i:729874 original size:31 final size:30
Alignment explanation
Indices: 729805--729876 Score: 76
Period size: 31 Copynumber: 2.4 Consensus size: 30
729795 TTTCATTTAT
729805 GTACCTAAA-TTATTTTTCTATCAAAATAA
1 GTACCTAAAGTTATTTTTCTATCAAAATAA
* ** *
729834 ATATTTAAAGTTATCTTTT-TGGTCAAAATAA
1 GTACCTAAAGTTAT-TTTTCT-ATCAAAATAA
729865 GTACCTAAAGTT
1 GTACCTAAAGTT
729877 TTTAATTTTT
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
29 6 0.18
30 5 0.15
31 22 0.67
ACGTcount: A:0.39, C:0.11, G:0.08, T:0.42
Consensus pattern (30 bp):
GTACCTAAAGTTATTTTTCTATCAAAATAA
Found at i:730032 original size:29 final size:28
Alignment explanation
Indices: 729961--730034 Score: 85
Period size: 29 Copynumber: 2.6 Consensus size: 28
729951 AAAATGTTTG
* * *
729961 AATAGTTTAGGTACCTATTGTGACATAA
1 AATACTTTAGGTACTTATTGTGACAAAA
* * *
729989 AATACTTGAGATACTTATTTTGACCAAAA
1 AATACTTTAGGTACTTATTGTGA-CAAAA
730018 AATACTTTAGGTACTTA
1 AATACTTTAGGTACTTA
730035 AATGAGAAGG
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
28 18 0.49
29 19 0.51
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (28 bp):
AATACTTTAGGTACTTATTGTGACAAAA
Found at i:735411 original size:2 final size:2
Alignment explanation
Indices: 735404--735434 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
735394 TAAAATTCAA
735404 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
735435 AATTAACATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:744602 original size:18 final size:19
Alignment explanation
Indices: 744579--744616 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
744569 TCAAAGAACA
*
744579 TTTTTGA-AAAATTGTTTG
1 TTTTTGACAAAATTGATTG
744597 TTTTTGACAAAATTGATTG
1 TTTTTGACAAAATTGATTG
744616 T
1 T
744617 AAAATATAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.29, C:0.03, G:0.16, T:0.53
Consensus pattern (19 bp):
TTTTTGACAAAATTGATTG
Found at i:745441 original size:22 final size:22
Alignment explanation
Indices: 745413--745456 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
745403 AGTCAAGGTA
745413 TGTTTTTATGAATTTTCCATTC
1 TGTTTTTATGAATTTTCCATTC
745435 TGTTTTTATGAATTTTCCATTC
1 TGTTTTTATGAATTTTCCATTC
745457 GAAAGATCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.18, C:0.14, G:0.09, T:0.59
Consensus pattern (22 bp):
TGTTTTTATGAATTTTCCATTC
Found at i:746848 original size:16 final size:16
Alignment explanation
Indices: 746827--746860 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
746817 GATTTCGGTT
746827 TAAATAAA-AATAATAA
1 TAAATAAAGAA-AATAA
746843 TAAATAAAGAAAATAA
1 TAAATAAAGAAAATAA
746859 TA
1 TA
746861 TATACCTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 15 0.88
17 2 0.12
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (16 bp):
TAAATAAAGAAAATAA
Found at i:747851 original size:91 final size:92
Alignment explanation
Indices: 747695--747861 Score: 257
Period size: 91 Copynumber: 1.8 Consensus size: 92
747685 TGATAGGTCA
* * *
747695 AACAAGCTCTTCTTATTATGAACTTTTTCTACCTCTTTCGGATGAGTTCTTCTCATTATAAACTC
1 AACAAGCTCTTCATATTATGAACTTCTTCTACCTCGTTCGGATGAGTTCTTCTCATTATAAACTC
747760 TCCATTGGAAACACTGATGCGAAATCG
66 TCCATTGGAAACACTGATGCGAAATCG
* * *
747787 AACAAGTTCTTCATATTATGAACTTCTTCT-CTCTCGTT-GGATGAGTTCTTTTCATTATGAACT
1 AACAAGCTCTTCATATTATGAACTTCTTCTAC-CTCGTTCGGATGAGTTCTTCTCATTATAAACT
747850 CTCCATTGGAAA
65 CTCCATTGGAAA
747862 TGTTGATCCA
Statistics
Matches: 68, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
91 36 0.53
92 32 0.47
ACGTcount: A:0.26, C:0.22, G:0.13, T:0.39
Consensus pattern (92 bp):
AACAAGCTCTTCATATTATGAACTTCTTCTACCTCGTTCGGATGAGTTCTTCTCATTATAAACTC
TCCATTGGAAACACTGATGCGAAATCG
Found at i:747952 original size:19 final size:17
Alignment explanation
Indices: 747901--747953 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
747891 TGAAAGGAAC
747901 AAGTTCTTCTCATTATG
1 AAGTTCTTCTCATTATG
* *
747918 AACTT-TTC-CTTTATG
1 AAGTTCTTCTCATTATG
747933 ATGAGTTCTTCTCATTATG
1 A--AGTTCTTCTCATTATG
747952 AA
1 AA
747954 CTCTTCTGGA
Statistics
Matches: 28, Mismatches: 4, Indels: 8
0.70 0.10 0.20
Matches are distributed among these distances:
15 7 0.25
16 3 0.11
17 8 0.29
18 3 0.11
19 7 0.25
ACGTcount: A:0.25, C:0.17, G:0.11, T:0.47
Consensus pattern (17 bp):
AAGTTCTTCTCATTATG
Found at i:747958 original size:16 final size:16
Alignment explanation
Indices: 747905--747960 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
747895 AGGAACAAGT
747905 TCTTCTCATTATGAAC
1 TCTTCTCATTATGAAC
* * *
747921 TTTTC-CTTTATGATGAGT
1 TCTTCTCATTATGA--A-C
747939 TCTTCTCATTATGAAC
1 TCTTCTCATTATGAAC
747955 TCTTCT
1 TCTTCT
747961 GGAAATGTCA
Statistics
Matches: 30, Mismatches: 6, Indels: 8
0.68 0.14 0.18
Matches are distributed among these distances:
15 7 0.23
16 10 0.33
17 2 0.07
18 4 0.13
19 7 0.23
ACGTcount: A:0.20, C:0.21, G:0.09, T:0.50
Consensus pattern (16 bp):
TCTTCTCATTATGAAC
Found at i:748545 original size:36 final size:36
Alignment explanation
Indices: 748497--748983 Score: 340
Period size: 36 Copynumber: 13.2 Consensus size: 36
748487 AACTGTATCA
* * *
748497 AAAACTTGTTTCAAGGGAAACTACCTCAAGGGAGAC
1 AAAATTTGTTTCAAGGGAAACTATCTCAAGAGAGAC
* *
748533 AAAATTTATTTCAAGGGAAACTGTCTCAAGAGAGAC
1 AAAATTTGTTTCAAGGGAAACTATCTCAAGAGAGAC
* *
748569 AAAATTTGTTTCGAGGGAAACTGTCTCAAGAGAGAC
1 AAAATTTGTTTCAAGGGAAACTATCTCAAGAGAGAC
* * *
748605 AAAATTTGTTTAAAGGGAAACTATCTCAAGCGAGAT
1 AAAATTTGTTTCAAGGGAAACTATCTCAAGAGAGAC
* * *
748641 AAAATCTTTTGTTTCGAGGGAAACTATCTCAAGCGAGAT
1 AAAA---TTTGTTTCAAGGGAAACTATCTCAAGAGAGAC
** * * ** *
748680 AAAATCTTTTGTTTCAAGAAAAAACAATCTCGAGCTAGAT
1 AAAA---TTTGTTTCAAG-GGAAACTATCTCAAGAGAGAC
* * ** *
748720 AAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGCA-AGAT
1 AAAA--TT-TGTTTCAAGG-GAAACTATCTCAAG-AGAGAC
* * * *
748760 AAAATCTTCTGTTTCAAGTGAAATTGTCTCAAGGGAGAC
1 AAAA--TT-TGTTTCAAGGGAAACTATCTCAAGAGAGAC
* * ** * *
748799 ------TGTCTAAAGGGAAACCGTCTCAAGGGAGAA
1 AAAATTTGTTTCAAGGGAAACTATCTCAAGAGAGAC
*
748829 AAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGAC
1 AAAATTTGTTTCAAGGGAAACTATCTCAAGAGAGAC
* * *
748865 AAAATTTGTTTCGAGGGAAACTATCTCAAGCGAGATAAAA
1 AAAATTTGTTTCAAGGGAAACTATCTCAA--GAG--AGAC
* * *
748905 AAAATTTGTTTCGAGGGAAACTATCTCAAGTGAGAT
1 AAAATTTGTTTCAAGGGAAACTATCTCAAGAGAGAC
* * * *
748941 AAAATATGTTTCGAGGGAAACTGTCTCGAGAGAGAC
1 AAAATTTGTTTCAAGGGAAACTATCTCAAGAGAGAC
748977 AAAATTT
1 AAAATTT
748984 TTTGTTTCAA
Statistics
Matches: 375, Mismatches: 58, Indels: 36
0.80 0.12 0.08
Matches are distributed among these distances:
30 24 0.06
36 191 0.51
38 5 0.01
39 60 0.16
40 95 0.25
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (36 bp):
AAAATTTGTTTCAAGGGAAACTATCTCAAGAGAGAC
Found at i:748721 original size:40 final size:39
Alignment explanation
Indices: 748622--748777 Score: 186
Period size: 40 Copynumber: 3.9 Consensus size: 39
748612 GTTTAAAGGG
* * * **
748622 AAACTATCTCAAGCGAGATAAAATCTTTTGTTTCGAGGG
1 AAACAATCTCAAGCGAGATAAAATCTTCTGTTTCAAGAA
* *
748661 AAACTATCTCAAGCGAGATAAAATCTTTTGTTTCAAGAAA
1 AAACAATCTCAAGCGAGATAAAATCTTCTGTTTCAAG-AA
* *
748701 AAACAATCTCGAGCTAGATAAAATCTTCTGTTTCAAGGAA
1 AAACAATCTCAAGCGAGATAAAATCTTCTGTTTCAA-GAA
** *
748741 AAACAATCTTGAGCAAGATAAAATCTTCTGTTTCAAG
1 AAACAATCTCAAGCGAGATAAAATCTTCTGTTTCAAG
748778 TGAAATTGTC
Statistics
Matches: 106, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 37 0.35
40 68 0.64
41 1 0.01
ACGTcount: A:0.39, C:0.16, G:0.15, T:0.29
Consensus pattern (39 bp):
AAACAATCTCAAGCGAGATAAAATCTTCTGTTTCAAGAA
Found at i:748802 original size:15 final size:15
Alignment explanation
Indices: 748784--748827 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
748774 CAAGTGAAAT
748784 TGTCTCAAGGGAGAC
1 TGTCTCAAGGGAGAC
* *
748799 TGTCTAAAGGGAAAC
1 TGTCTCAAGGGAGAC
*
748814 CGTCTCAAGGGAGA
1 TGTCTCAAGGGAGA
748828 AAAAATTTGT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.32, C:0.18, G:0.32, T:0.18
Consensus pattern (15 bp):
TGTCTCAAGGGAGAC
Found at i:748953 original size:76 final size:76
Alignment explanation
Indices: 748533--748967 Score: 265
Period size: 76 Copynumber: 5.8 Consensus size: 76
748523 CAAGGGAGAC
* * * *
748533 AAAATTTATTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCGAGGGAAACTGTCTCAA
1 AAAATTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATATGTTTCGAGGGAAACTATCTCAA
* *
748598 --GAG--AGAC
66 GCGAGATAAAA
* * * *
748605 AAAATTTGTTTAAAGGGAAACTATCTCAAGCGAGATAAAATCTTTTGTTTCGAGGGAAACTATCT
1 AAAATTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA---TATGTTTCGAGGGAAACTATCT
748670 CAAGCGAGAT-AAA
63 CAAGCGAGATAAAA
*** ** * * ** * * * * *
748683 ATCTTTTGTTTCAAGAAAAAACAATCTCGAGCTAGATAAAATCTTCTGTTTCAAGGAAAAACAAT
1 AAAATTTGTTTCAAG-GGAAACTATCTCAAGAGAGACAAAA---TATGTTTCGAGG-GAAACTAT
** *
748748 CTTGAGCAAGAT--AA
61 CTCAAGCGAGATAAAA
** * * * * * ** **
748762 AATCTTCTGTTTCAAGTGAAATTGTCTCAAGGGAGAC------TGTCTAAAGGGAAACCGTCTCA
1 AAAATT-TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATATGTTTCGAGGGAAACTATCTCA
*
748821 AG-G-G--AGAA
65 AGCGAGATAAAA
* *
748829 AAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCGAGGGAAACTATCTCAA
1 AAAATTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATATGTTTCGAGGGAAACTATCTCAA
748894 GCGAGATAAAA
66 GCGAGATAAAA
* * * *
748905 AAAATTTGTTTCGAGGGAAACTATCTCAAGTGAGATAAAATATGTTTCGAGGGAAACTGTCTC
1 AAAATTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATATGTTTCGAGGGAAACTATCTC
748968 GAGAGAGACA
Statistics
Matches: 280, Mismatches: 61, Indels: 40
0.73 0.16 0.10
Matches are distributed among these distances:
66 27 0.10
67 7 0.03
69 9 0.03
70 8 0.03
72 54 0.19
73 1 0.00
74 1 0.00
75 24 0.09
76 60 0.21
77 3 0.01
78 12 0.04
79 50 0.18
80 24 0.09
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.27
Consensus pattern (76 bp):
AAAATTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATATGTTTCGAGGGAAACTATCTCAA
GCGAGATAAAA
Found at i:749015 original size:76 final size:76
Alignment explanation
Indices: 748827--749021 Score: 205
Period size: 76 Copynumber: 2.6 Consensus size: 76
748817 CTCAAGGGAG
* ** * * *
748827 AAAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCGAGGGAAACTATCTC
1 AAAAAATTTGTTTCAAGGAAAACAATCTCAAGTGAGATAAAATATGTTTCGAGGGAAACTATCTC
*
748892 AAGCGAGATAA
66 AAGAGAGATAA
* * * *
748903 AAAAAATTTGTTTCGAGGGAAACTATCTCAAGTGAGATAAAATATGTTTCGAGGGAAACTGTCTC
1 AAAAAATTTGTTTCAAGGAAAACAATCTCAAGTGAGATAAAATATGTTTCGAGGGAAACTATCTC
* *
748968 GAGAGAGA-CA
66 AAGAGAGATAA
*** *
748978 AAATTTTTTGTTTCAAGGAAAACCAATCTTGAA-TGAGATAAAAT
1 AAAAAATTTGTTTCAAGGAAAA-CAATC-TCAAGTGAGATAAAAT
749022 CTTATGTTTC
Statistics
Matches: 101, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
75 18 0.18
76 80 0.79
77 3 0.03
ACGTcount: A:0.41, C:0.12, G:0.21, T:0.27
Consensus pattern (76 bp):
AAAAAATTTGTTTCAAGGAAAACAATCTCAAGTGAGATAAAATATGTTTCGAGGGAAACTATCTC
AAGAGAGATAA
Found at i:749021 original size:40 final size:40
Alignment explanation
Indices: 748972--749049 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
748962 TGTCTCGAGA
* * *
748972 GAGACAAAATTTTTTGTTTCAAGGAAAACCAATCTTGAAT
1 GAGACAAAATCTTATGTTTCAAGGAAAAACAATCTTGAAT
*
749012 GAGATAAAATCTTATGTTTCAAGGAAAAACAATCTTGA
1 GAGACAAAATCTTATGTTTCAAGGAAAAACAATCTTGA
749050 GCCAAATGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (40 bp):
GAGACAAAATCTTATGTTTCAAGGAAAAACAATCTTGAAT
Found at i:754367 original size:20 final size:20
Alignment explanation
Indices: 754338--754380 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
754328 ACAAAAAATG
* *
754338 AAAATGTAAATACAAATGTA
1 AAAATATAAATACAAATGCA
*
754358 AAAATATAAATGCAAATGCA
1 AAAATATAAATACAAATGCA
754378 AAA
1 AAA
754381 GGTATCGATT
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:0.63, C:0.07, G:0.09, T:0.21
Consensus pattern (20 bp):
AAAATATAAATACAAATGCA
Found at i:755607 original size:31 final size:31
Alignment explanation
Indices: 755567--756005 Score: 779
Period size: 31 Copynumber: 14.2 Consensus size: 31
755557 GGTCATAATA
*
755567 TAAATTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
*
755598 TAAACTGTTCATATGTGCCTTTAAACATATA
1 TAAACTGTTCATATGTGCCTTTAAACATATG
755629 TAAACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
755660 TAAACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
* *
755691 TAAAATGTTCATATGTGCCTTTAAACATATA
1 TAAACTGTTCATATGTGCCTTTAAACATATG
*
755722 TAAACTGTTCATATGTGCATTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
755753 TAAACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
755784 TAAACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
*
755815 TAAACTGTTCATATGTGCCTTTAAACATATA
1 TAAACTGTTCATATGTGCCTTTAAACATATG
*
755846 TAAACTGTTCATATGTGCCTTTAAACATATA
1 TAAACTGTTCATATGTGCCTTTAAACATATG
*
755877 TAAACTATTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
* *
755908 TAAATTGTTCATATGTGTCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
*
755939 TAAATTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
755970 TAAACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
756001 TAAAC
1 TAAAC
756006 CCTCGACTCT
Statistics
Matches: 391, Mismatches: 17, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 391 1.00
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.39
Consensus pattern (31 bp):
TAAACTGTTCATATGTGCCTTTAAACATATG
Found at i:755767 original size:15 final size:15
Alignment explanation
Indices: 755747--755830 Score: 50
Period size: 15 Copynumber: 5.5 Consensus size: 15
755737 TGCATTTAAA
755747 CATATGTAAACTGTT
1 CATATGTAAACTGTT
**
755762 CATATGT-GCCT-TT
1 CATATGTAAACTGTT
755775 AAACATATGTAAACTGTT
1 ---CATATGTAAACTGTT
**
755793 CATATGT-GCCT-TT
1 CATATGTAAACTGTT
755806 AAACATATGTAAACTGTT
1 ---CATATGTAAACTGTT
755824 CATATGT
1 CATATGT
755831 GCCTTTAAAC
Statistics
Matches: 51, Mismatches: 8, Indels: 20
0.65 0.10 0.25
Matches are distributed among these distances:
13 4 0.08
14 4 0.08
15 21 0.41
16 14 0.27
17 4 0.08
18 4 0.08
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.39
Consensus pattern (15 bp):
CATATGTAAACTGTT
Found at i:755783 original size:16 final size:16
Alignment explanation
Indices: 755762--755844 Score: 52
Period size: 16 Copynumber: 5.3 Consensus size: 16
755752 GTAAACTGTT
755762 CATATGTGCCTTTAAA
1 CATATGTGCCTTTAAA
**
755778 CATATGTAAACTGTT---
1 CATATGT-GCCT-TTAAA
755793 CATATGTGCCTTTAAA
1 CATATGTGCCTTTAAA
**
755809 CATATGTAAACTGTT---
1 CATATGT-GCCT-TTAAA
755824 CATATGTGCCTTTAAA
1 CATATGTGCCTTTAAA
755840 CATAT
1 CATAT
755845 ATAAACTGTT
Statistics
Matches: 49, Mismatches: 8, Indels: 20
0.64 0.10 0.26
Matches are distributed among these distances:
13 4 0.08
14 4 0.08
15 14 0.29
16 19 0.39
17 4 0.08
18 4 0.08
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.39
Consensus pattern (16 bp):
CATATGTGCCTTTAAA
Found at i:755969 original size:16 final size:16
Alignment explanation
Indices: 755948--756001 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
755938 GTAAATTGTT
755948 CATATGTGCCTTTAAA
1 CATATGTGCCTTTAAA
**
755964 CATATGTAAACTGTT---
1 CATATGT-GCCT-TTAAA
755979 CATATGTGCCTTTAAA
1 CATATGTGCCTTTAAA
755995 CATATGT
1 CATATGT
756002 AAACCCTCGA
Statistics
Matches: 29, Mismatches: 4, Indels: 10
0.67 0.09 0.23
Matches are distributed among these distances:
13 2 0.07
14 2 0.07
15 7 0.24
16 14 0.48
17 2 0.07
18 2 0.07
ACGTcount: A:0.31, C:0.17, G:0.13, T:0.39
Consensus pattern (16 bp):
CATATGTGCCTTTAAA
Found at i:759185 original size:13 final size:13
Alignment explanation
Indices: 759161--759192 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
759151 TATATTTAAT
759161 ATAAAA-AATAAA
1 ATAAAATAATAAA
759173 ATAAAATAATAAA
1 ATAAAATAATAAA
759186 ATAAAAT
1 ATAAAAT
759193 CATGAGCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (13 bp):
ATAAAATAATAAA
Found at i:760512 original size:15 final size:16
Alignment explanation
Indices: 760492--760524 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
760482 GATTTCGGTT
760492 TAAATAAA-AAAACAA
1 TAAATAAAGAAAACAA
*
760507 TAAATAAAGAAAATAA
1 TAAATAAAGAAAACAA
760523 TA
1 TA
760525 TATACCTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.18
Consensus pattern (16 bp):
TAAATAAAGAAAACAA
Found at i:760985 original size:27 final size:29
Alignment explanation
Indices: 760953--761006 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
760943 GAACACTTGA
760953 ATAGTGG-AG-TGGGTGGAAAGAAATGTG
1 ATAGTGGAAGCTGGGTGGAAAGAAATGTG
*
760980 ATAGTGGAAGCTTGGTGGAAAGAAATG
1 ATAGTGGAAGCTGGGTGGAAAGAAATG
761007 AAAATGGTGC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 7 0.29
28 2 0.08
29 15 0.62
ACGTcount: A:0.35, C:0.02, G:0.41, T:0.22
Consensus pattern (29 bp):
ATAGTGGAAGCTGGGTGGAAAGAAATGTG
Found at i:761081 original size:44 final size:44
Alignment explanation
Indices: 761031--761127 Score: 117
Period size: 44 Copynumber: 2.2 Consensus size: 44
761021 AACAGTGTAC
* * * *
761031 ATCGATGCGCATTC-AAGGAGTGCATCGGTGCA-TATTGATGATGT
1 ATCGATGCACATTCAAAGGAATACATCGATGCACTATTGA-G-TGT
*
761075 ATCGATGCACATTCAAAGGAATACATCGATGCACTATTTAGTGT
1 ATCGATGCACATTCAAAGGAATACATCGATGCACTATTGAGTGT
761119 ATCGATGCA
1 ATCGATGCA
761128 TTATGTACAA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
44 25 0.54
45 16 0.35
46 5 0.11
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.29
Consensus pattern (44 bp):
ATCGATGCACATTCAAAGGAATACATCGATGCACTATTGAGTGT
Found at i:761345 original size:16 final size:13
Alignment explanation
Indices: 761313--761342 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
761303 GCAAAGAATG
761313 TTATCAAACAATA
1 TTATCAAACAATA
761326 TTATCAAACAATA
1 TTATCAAACAATA
761339 TTAT
1 TTAT
761343 TATTATAAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (13 bp):
TTATCAAACAATA
Found at i:767882 original size:31 final size:31
Alignment explanation
Indices: 767765--767903 Score: 97
Period size: 31 Copynumber: 4.5 Consensus size: 31
767755 GAGTCGAGGG
* * *
767765 TTTACCTATGTTCTACGGAACATATGGAAAAA
1 TTTACCTAGGTTCTTCGGAACATAT-GAACAA
* *
767797 ATTACCTA-TTTCTTTC-GAGACATATGAAC-A
1 TTTACCTAGGTTC-TTCGGA-ACATATGAACAA
* * ** *
767827 TTATACATATGTTCTAAGGAACATATGAACAG
1 TT-TACCTAGGTTCTTCGGAACATATGAACAA
* *
767859 TTTACCTAGGTTCTTCGGGACATATGGACAA
1 TTTACCTAGGTTCTTCGGAACATATGAACAA
*
767890 TTT-CCGAGGTTCTT
1 TTTACCTAGGTTCTT
767904 TATGACCTCT
Statistics
Matches: 83, Mismatches: 18, Indels: 14
0.72 0.16 0.12
Matches are distributed among these distances:
30 12 0.14
31 49 0.59
32 22 0.27
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.35
Consensus pattern (31 bp):
TTTACCTAGGTTCTTCGGAACATATGAACAA
Found at i:769435 original size:24 final size:24
Alignment explanation
Indices: 769403--769450 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
769393 GAAGAGACTC
769403 ACCACTGGACGTTATGACAACCAT
1 ACCACTGGACGTTATGACAACCAT
*
769427 ACCACTGGACGTTATGACAGCCAT
1 ACCACTGGACGTTATGACAACCAT
769451 GAATGGTTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (24 bp):
ACCACTGGACGTTATGACAACCAT
Found at i:775440 original size:2 final size:2
Alignment explanation
Indices: 775433--775542 Score: 211
Period size: 2 Copynumber: 55.0 Consensus size: 2
775423 TAATTTTGTT
775433 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
*
775475 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
775517 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
775543 GTAATATAGT
Statistics
Matches: 106, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
2 106 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:775578 original size:38 final size:36
Alignment explanation
Indices: 775536--775799 Score: 173
Period size: 38 Copynumber: 7.0 Consensus size: 36
775526 ATATATATAT
**
775536 ATATATAGTAATATAGTTTTTGAAAATGTTTTGACAAA-
1 ATATATA-T-ATATAGTTTTTGAAAACATTTTGA-AAAC
* * * *
775574 ATATA-ATGTATAATTTTCGGAAAACGATTTTCGAAAATA
1 ATATATATATATAGTTTT-TGAAAAC-ATTTT-GAAAA-C
* * *
775613 AGTATATATTATATAGTTTTTGAAAACGTTTTTAAAAT
1 A-TATATA-TATATAGTTTTTGAAAACATTTTGAAAAC
* *
775651 ATATATAGTATAT-GGTTTTGAAAAAATATTTTGAAAAC
1 ATATATA-TATATAGTTTTTG--AAAACATTTTGAAAAC
**
775689 ATTTATATATTATATAGTTTTT-AAAACATTTTGAAAGT
1 A--TATATA-TATATAGTTTTTGAAAACATTTTGAAAAC
775727 ATATA-ATATATAGTTTTT-AAAACATTTTGAAAAC
1 ATATATATATATAGTTTTTGAAAACATTTTGAAAAC
*
775761 TTATATATAATATATAAATTTTT-AAAACATTTTTGAAAA
1 --ATATAT-ATATAT-AGTTTTTGAAAACA-TTTTGAAAA
775800 TTATATGATT
Statistics
Matches: 182, Mismatches: 25, Indels: 36
0.75 0.10 0.15
Matches are distributed among these distances:
34 26 0.14
35 9 0.05
36 21 0.12
37 19 0.10
38 41 0.23
39 17 0.09
40 28 0.15
41 12 0.07
42 9 0.05
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.43
Consensus pattern (36 bp):
ATATATATATATAGTTTTTGAAAACATTTTGAAAAC
Found at i:775655 original size:77 final size:72
Alignment explanation
Indices: 775536--775805 Score: 213
Period size: 77 Copynumber: 3.6 Consensus size: 72
775526 ATATATATAT
* ** *
775536 ATATATAGTAATATAGTTTTTGAAAATGTTTTGACAAA-ATATAATGTATAATTTTCGGAAAACG
1 ATATATA-TTATATAGTTTTT-AAAACATTTTGA-AAATATATAATGTATAATTTT-GAAAAAC-
775600 ATTTTCGAAAATA
61 ATTTT-GAAAATA
* * *
775613 AGTATATATTATATAGTTTTTGAAAACGTTTTTAAAATATAT-ATAGTATATGGTTTTGAAAAAA
1 A-TATATATTATATAGTTTTT-AAAACATTTTGAAAATATATAAT-GTATA--ATTTTG-AAAAA
* *
775677 TATTTTGAAAACA
60 CATTTTGAAAATA
* * * * *
775690 TTTATATATTATATAGTTTTTAAAACATTTTGAAAGTATATAATATATAGTTTT-TAAAACATTT
1 -ATATATATTATATAGTTTTTAAAACATTTTGAAAATATATAATGTATAATTTTGAAAAACATTT
*
775754 TGAAAACTT
65 TGAAAA-TA
* *
775763 ATATATAATATATAAATTTTTAAAACATTTTTGAAAATTATAT
1 ATATATATTATAT-AGTTTTTAAAACA-TTTTGAAAA-TATAT
775806 GATTTAAAAA
Statistics
Matches: 161, Mismatches: 20, Indels: 26
0.78 0.10 0.13
Matches are distributed among these distances:
72 25 0.16
73 12 0.07
74 13 0.08
75 5 0.03
76 26 0.16
77 60 0.37
78 12 0.07
79 8 0.05
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.44
Consensus pattern (72 bp):
ATATATATTATATAGTTTTTAAAACATTTTGAAAATATATAATGTATAATTTTGAAAAACATTTT
GAAAATA
Found at i:775714 original size:27 final size:30
Alignment explanation
Indices: 775679--775753 Score: 84
Period size: 34 Copynumber: 2.5 Consensus size: 30
775669 TGAAAAAATA
*
775679 TTTTGAAAACATTT-A-TATAT-TATATAG
1 TTTTTAAAACATTTAAGTATATATATATAG
775706 TTTTTAAAACATTTTGAAAGTATATAATATATAG
1 TTTTTAAAACA-TTT--AAGTATAT-ATATATAG
775740 TTTTTAAAACATTT
1 TTTTTAAAACATTT
775754 TGAAAACTTA
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
27 10 0.25
28 3 0.08
31 1 0.03
32 5 0.12
33 3 0.08
34 18 0.45
ACGTcount: A:0.41, C:0.04, G:0.07, T:0.48
Consensus pattern (30 bp):
TTTTTAAAACATTTAAGTATATATATATAG
Found at i:775730 original size:32 final size:33
Alignment explanation
Indices: 775692--775758 Score: 116
Period size: 34 Copynumber: 2.0 Consensus size: 33
775682 TGAAAACATT
775692 TATATATTATATAGTTTTTAAAACATTTTGAAAG
1 TATATA-TATATAGTTTTTAAAACATTTTGAAAG
775726 TATATAATATATAGTTTTTAAAACATTTTGAAA
1 TATAT-ATATATAGTTTTTAAAACATTTTGAAA
775759 ACTTATATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
34 31 0.97
35 1 0.03
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.46
Consensus pattern (33 bp):
TATATATATATAGTTTTTAAAACATTTTGAAAG
Found at i:775797 original size:74 final size:76
Alignment explanation
Indices: 775615--775805 Score: 234
Period size: 72 Copynumber: 2.6 Consensus size: 76
775605 CGAAAATAAG
* * *
775615 TATATATTATATAGTTTTTGAAAACGTTTTT-AAAATATATATAGTATATGGTTTTGAAAAAATA
1 TATATATTATATAGTTTTT-AAAACATTTTTGAAAATATATATAGTATATAGTTTT-AAAAAACA
775679 TTTTGAAAACATT
64 TTTTGAAAACATT
* *
775692 TATATATTATATAGTTTTTAAAACA-TTTTGAAAGTATATA-A-TATATAGTTTT-TAAAACATT
1 TATATATTATATAGTTTTTAAAACATTTTTGAAAATATATATAGTATATAGTTTTAAAAAACATT
775753 TTGAAAAC-TT
66 TTGAAAACATT
* *
775763 ATATATAATATATAAATTTTTAAAACATTTTTGAAAAT-TATAT
1 -TATATATTATAT-AGTTTTTAAAACATTTTTGAAAATATATAT
775806 GATTTAAAAA
Statistics
Matches: 101, Mismatches: 8, Indels: 13
0.83 0.07 0.11
Matches are distributed among these distances:
71 2 0.02
72 26 0.26
73 16 0.16
74 19 0.19
75 5 0.05
76 14 0.14
77 19 0.19
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.46
Consensus pattern (76 bp):
TATATATTATATAGTTTTTAAAACATTTTTGAAAATATATATAGTATATAGTTTTAAAAAACATT
TTGAAAACATT
Found at i:782680 original size:165 final size:163
Alignment explanation
Indices: 782405--783315 Score: 879
Period size: 164 Copynumber: 5.5 Consensus size: 163
782395 AGCATAGCTC
* ** *
782405 AAGGCTAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTTCGACTATGCTCAGCTCCAAGGCGC
1 AAGGCTAGAAGGGTTATCT-CCAACCAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCAC
* *
782470 AACATTTACAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACAC
65 ATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACAC
* * *
782535 TCAACTCCGAGGGCACATTATTTACAGTACAACAT
130 TCAGCTCCGAGGGCACATCATTTACAGTATAAC-T
***
782570 AAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCAC
1 AAGGCTAGAAGGGTTATCTCCAACC-AAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCAC
* * *
782635 ATCATTTGCAGCATAGCTTAAGTCGAGAATGGCTAACTTCCAAAGACCCTCGAGTTCGATTACAC
65 ATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACAC
*
782700 TCAGCTTCGAGGGCACATCATTTACA-TCATAACT
130 TCAGCTCCGAGGGCACATCATTTACAGT-ATAACT
** * * *
782734 CAAGGCTAGAAGGGTTATCTCTCAA-CAAAGACCTTTAAGTTCGATTACACTCATCTCAAAGGCA
1 -AAGGCTAGAAGGGTTATCTC-CAACCAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCA
* *
782798 CATCATTTGCAGGATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACA
64 CATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACA
* * *
782863 CTCAGCTCCAAGGGCACATCATTTGCAGCATAACTT
129 CTCAGCTCCGAGGGCACATCATTTACAGTATAAC-T
* * *
782899 AAGTCGAGAAGGGTTATCTACCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCAC
1 AAGGCTAGAAGGGTTATCT-CCAACCAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCAC
* * * * * *
782964 ATCATTTGCAGTATAGCTTAAGTCGAGAAGGGTTATCTACCAACCAAAGGCCTTCGAGTTCGACT
65 ATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCT----GCCAAAGACCCTCGAGTTCGATT
* * * *
783029 ACGCTCAGCTCC-AAGGCACATCATTTGCAGTATAGCTT
126 ACACTCAGCTCCGAGGGCACATCATTTACAGTATAAC-T
* * * * * * * * *
783067 AAGTCGAGAAGGGTTATCT---ACCAAAGACCCTCAATTTTGATTACACTCAGCTTCAAGGGAAC
1 AAGGCTAGAAGGGTTATCTCCAACCAAAGACCTTCGAGTTCGACTACACTCAGCTCCAA-GGCAC
* * * * * * *
783129 AAT-ATTTACAACATAACTCAAG--GTAAAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGA
65 -ATCATTTGCAGCATAGCTTAAGTCG-AGAAGGGCTATCTG---CC-AAAGACCCTCGAGTTCGA
* * * * * *
783191 TTACGCTTAGCTCC-AAGGCATATCATTTGCAGCATAACTT
124 TTACACTCAGCTCCGAGGGCACATCATTTACAGTATAAC-T
* * * * * * * ** *
783231 AAGTCGATAAGGGTTATCTGCCAGCACAAAAGACATTCGAGTTCGATTACAGTCAATTCAAAGGC
1 AAGGCTAGAAGGGTTATCT-CCA--ACCAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGC
* *
783296 ACAACATTTACAGCATAGCT
63 ACATCATTTGCAGCATAGCT
783316 CAAGGAAATA
Statistics
Matches: 631, Mismatches: 89, Indels: 48
0.82 0.12 0.06
Matches are distributed among these distances:
163 3 0.00
164 259 0.41
165 251 0.40
166 3 0.00
168 43 0.07
169 46 0.07
170 26 0.04
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (163 bp):
AAGGCTAGAAGGGTTATCTCCAACCAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACA
TCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACT
CAGCTCCGAGGGCACATCATTTACAGTATAACT
Found at i:782775 original size:84 final size:84
Alignment explanation
Indices: 782390--783315 Score: 752
Period size: 84 Copynumber: 11.2 Consensus size: 84
782380 ATTTTTTTTG
* * * * * **
782390 TTTGCAGCATAGCTCAAGGCTAGAAGGGCTATCTGC-CAACCAAAGACCTTCGAGTTCGACTATG
1 TTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCT-CTCAA-CAAAGACCTTCGAGTTCGATTACA
* * *
782454 CTCAGC-TCCAAGGCGCAACA
64 CTCAGCTTCAAAGGCACATCA
* * * *
782474 TTTACAGCATAGCTTAAGTCGAGAAGGGCTATCT-GC--CAAAGACCCTCGAGTTCGATTACACT
1 TTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTCTCAACAAAGACCTTCGAGTTCGATTACACT
* * * * *
782536 CAACTCCGAGGGCACATTA
66 CAGCTTCAAAGGCACATCA
* * * * * * * * * * *
782555 TTTACAGTACAACATAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACAC
1 TTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTCTCAAC-AAAGACCTTCGAGTTCGATTACAC
*
782620 TCAGC-TCCAAGGCACATCA
65 TCAGCTTCAAAGGCACATCA
* * * *
782639 TTTGCAGCATAGCTTAAGTCGAGAATGGCTAACT-TC--CAAAGACCCTCGAGTTCGATTACACT
1 TTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTCTCAACAAAGACCTTCGAGTTCGATTACACT
* *
782701 CAGCTTCGAGGGCACATCA
66 CAGCTTCAAAGGCACATCA
* * * * * * **
782720 TTTACATCATAACTCAAGGCTAGAAGGGTTATCTCTCAACAAAGACCTTTAAGTTCGATTACACT
1 TTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTCTCAACAAAGACCTTCGAGTTCGATTACACT
*
782785 CATC-TCAAAGGCACATCA
66 CAGCTTCAAAGGCACATCA
* * * **
782803 TTTGCAGGATAGCTTAAGTCGAGAAGGGCTATCT-GC--CAAAGACCCCCGAGTTCGATTACACT
1 TTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTCTCAACAAAGACCTTCGAGTTCGATTACACT
* *
782865 CAGCTCCAAGGGCACATCA
66 CAGCTTCAAAGGCACATCA
* * *
782884 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTAC-CAACCAAAGACCTTCGAGTTCGACTACG
1 TTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCT-CTCAA-CAAAGACCTTCGAGTTCGATTACA
*
782948 CTCAGC-TCCAAGGCACATCA
64 CTCAGCTTCAAAGGCACATCA
* * * *
782968 TTTGCAGTATAGCTTAAGTCGAGAAGGGTTATCTAC-CAACCAAAGGCCTTCGAGTTCGACTACG
1 TTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCT-CTCAA-CAAAGACCTTCGAGTTCGATTACA
*
783032 CTCAGC-TCCAAGGCACATCA
64 CTCAGCTTCAAAGGCACATCA
* * * * * *
783052 TTTGCAGTATAGCTTAAGTCGAGAAGGGTTA--TCT-ACCAAAGACCCTCAATTTTGATTACACT
1 TTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTCTCAACAAAGACCTTCGAGTTCGATTACACT
* *
783114 CAGCTTCAAGGGAACAAT-A
66 CAGCTTCAAAGGCAC-ATCA
* * * * * * * *
783133 TTTACAACATAACTCAAG--GTAAAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGATTACG
1 TTTGCAGCATAGCTTAAGTCG-AGAAGGGTTATCTCTCAAC-AAAGACCTTCGAGTTCGATTACA
* * *
783196 CTTAGC-TCCAAGGCATATCA
64 CTCAGCTTCAAAGGCACATCA
* * *
783216 TTTGCAGCATAACTTAAGTCGATAAGGGTTATCTGC-CAGCACAAAAGACATTCGAGTTCGATTA
1 TTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCT-CTCA--AC-AAAGACCTTCGAGTTCGATTA
* * *
783280 CAGTCA-ATTCAAAGGCACAACA
62 CACTCAGCTTCAAAGGCACATCA
*
783302 TTTACAGCATAGCT
1 TTTGCAGCATAGCT
783316 CAAGGAAATA
Statistics
Matches: 677, Mismatches: 134, Indels: 60
0.78 0.15 0.07
Matches are distributed among these distances:
79 1 0.00
80 109 0.16
81 139 0.21
82 11 0.02
83 65 0.10
84 251 0.37
85 53 0.08
86 48 0.07
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.24
Consensus pattern (84 bp):
TTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTCTCAACAAAGACCTTCGAGTTCGATTACACT
CAGCTTCAAAGGCACATCA
Found at i:783094 original size:329 final size:327
Alignment explanation
Indices: 782397--783315 Score: 965
Period size: 329 Copynumber: 2.8 Consensus size: 327
782387 TTGTTTGCAG
* * * * * **
782397 CATAGCTCAAGGCTAGAAGGGCTA-TCTGCCAACCAAAGACCTTCGAGTTCGACTATGCTCAGCT
1 CATAACTCAAGGCGAGAAGGGTTACTCT--C-ACCAAAGACCTTCAAGTTCGATTACACTCAGCT
* * *
782461 CCAAGGCGCAACATTTACAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTT
63 CAAAGGCACATCATTTACAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTT
* * * * * * * * * **
782526 CGATTACACTCAACTCCGAGGGCACATTATTTACAGTACAACATAAGGCTAGAAGGGTTATCTGT
128 CGATTACACTCAGCTCCAAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTCC
*
782591 GACCAAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAA
193 AACC-AAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAA
* ** * * *
782656 GTCGAGAATGGCTAACTTCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCAT
257 GTCGAGAAGGGCTAACAACCAAAGACCCTCGAGTTCGACTACACTCAGCTTCCAAGGCACATCAT
782721 TTACAT
322 TTACAT
* * * *
782727 CATAACTCAAGGCTAGAAGGGTTATCTCTCAACAAAGACCTTTAAGTTCGATTACACTCATCTCA
1 CATAACTCAAGGCGAGAAGGGTTA-CTCTCACCAAAGACCTTCAAGTTCGATTACACTCAGCTCA
* * *
782792 AAGGCACATCATTTGCAGGATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCG
65 AAGGCACATCATTTACAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCG
782857 ATTACACTCAGCTCCAAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTACCA
130 ATTACACTCAGCTCCAAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCT-CCA
* *
782922 ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGTATAGCTTAAGT
194 ACCAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGT
* * * *
782987 CGAGAAGGGTTATCTACCAACCAAAGGCCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATC
259 CGAGAAGGG----CTAACAACCAAAGACCCTCGAGTTCGACTACACTCAGCTTCCAAGGCACATC
*
783051 ATTTGCAGT
320 ATTTACA-T
* * * * * *
783060 -ATAGCTTAAGTCGAGAAGGGTTA-TCT-ACCAAAGACCCTCAATTTTGATTACACTCAGCTTCA
1 CATAACTCAAGGCGAGAAGGGTTACTCTCACCAAAGACCTTCAAGTTCGATTACACTCAGC-TCA
* * * * * * * *
783122 AGGGAACAAT-ATTTACAACATAACTCAAG--GTAAAAGGGTTATCTGTCACCAAAAGACCTTCG
65 AAGGCAC-ATCATTTACAGCATAGCTTAAGTCG-AGAAGGGCTATCTG---CC-AAAGACCCTCG
* * * *
783184 AGTTCGATTACGCTTAGCTCCAA-GGCATATCATTTGCAGCATAACTTAAGTCGATAAGGGTTAT
124 AGTTCGATTACACTCAGCTCCAAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTAT
* * * * ** * * *
783248 CTGCCAGCACAAAAGACATTCGAGTTCGATTACAGTCAATTCAAAGGCACAACATTTACAGCATA
189 CT-CCA--ACCAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGCATA
783313 GCT
251 GCT
783316 CAAGGAAATA
Statistics
Matches: 495, Mismatches: 77, Indels: 30
0.82 0.13 0.05
Matches are distributed among these distances:
328 1 0.00
329 245 0.49
330 51 0.10
331 2 0.00
332 85 0.17
333 62 0.13
334 49 0.10
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (327 bp):
CATAACTCAAGGCGAGAAGGGTTACTCTCACCAAAGACCTTCAAGTTCGATTACACTCAGCTCAA
AGGCACATCATTTACAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGA
TTACACTCAGCTCCAAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTCCAAC
CAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCG
AGAAGGGCTAACAACCAAAGACCCTCGAGTTCGACTACACTCAGCTTCCAAGGCACATCATTTAC
AT
Found at i:783179 original size:413 final size:409
Alignment explanation
Indices: 782390--783253 Score: 1090
Period size: 413 Copynumber: 2.1 Consensus size: 409
782380 ATTTTTTTTG
* * * ** **
782390 TTTGCAGCATAGCTCAAGGCTAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTTCGACTATGC
1 TTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG----CCAAAGACCCCCGAGTTCGACTACAC
* *
782455 TCAGCTCCAAGGCGCAACATTTACAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCT
62 TCAGCTCCAAGGCGCAACATTTACAGCATAACTTAAGTCGAGAAGGGCTATCTACCAAAGACCCT
* * * *
782520 CGAGTTCGATTACACTCAACTCCGAGGGCACATTATTTACAGTACAACATAAGGCTAGAAGGGTT
127 CGAGTTCGACTACACTCAACTCCGAAGGCACATCATTTACAGTACAACATAAGGCGAGAAGGGTT
***
782585 ATCTGTGACCAAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGCATA
192 ATCTCCAACCAAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGCATA
* * * * *
782650 GCTTAAGTCGAGAATGGCTAACTTCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCA
257 GCTTAAGTCGAGAAGGGCTAACTACCAAAGACCCTCAAGTTCGATTACACTCAGCTTCAAGGGAA
* * *
782715 CATCATTTACATCATAACTCAAGGCTAGAAGGGTTATCTCTCAACAAAGACCTTTAAGTTCGATT
322 CATCATTTACAACATAACTCAAGGCTAAAAGGGTTATCTCTCAACAAAGACCTTCAAGTTCGATT
*
782780 ACACTCATCTCAAAGGCACATCA
387 ACACTCAGCTCAAAGGCACATCA
* *
782803 TTTGCAGGATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAG
1 TTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGACTACACTCAG
* *
782868 CTCCAAGG-GCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTACCAACCAAAGACC
66 CTCCAAGGCGCA-A-CATTTACAGCATAACTTAAGTCGAGAAGGGCTATCT----ACCAAAGACC
* * * * * * * *
782932 TTCGAGTTCGACTACGCTCAGCTCC-AAGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGGG
125 CTCGAGTTCGACTACACTCAACTCCGAAGGCACATCATTTACAGTACAACATAAGGCGAGAAGGG
* * *
782996 TTATCTACCAACC-AAAGGCCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGT
190 TTATCT-CCAACCAAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGC
* * * *
783060 ATAGCTTAAGTCGAGAAGGGTTATCTACCAAAGACCCTCAATTTTGATTACACTCAGCTTCAAGG
254 ATAGCTTAAGTCGAGAAGGGCTAACTACCAAAGACCCTCAAGTTCGATTACACTCAGCTTCAAGG
* * *
783125 GAACAAT-ATTTACAACATAACTCAAGG-TAAAAGGGTTATCTGTCACCAAAAGACCTTCGAGTT
319 GAAC-ATCATTTACAACATAACTCAAGGCTAAAAGGGTTATCTCTCAAC-AAAGACCTTCAAGTT
* * * *
783188 CGATTACGCTTAGCTCCAAGGCATATCA
382 CGATTACACTCAGCTCAAAGGCACATCA
* * *
783216 TTTGCAGCATAACTTAAGTCGATAAGGGTTATCTGCCA
1 TTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCA
783254 GCACAAAAGA
Statistics
Matches: 387, Mismatches: 55, Indels: 18
0.84 0.12 0.04
Matches are distributed among these distances:
408 3 0.01
409 34 0.09
410 33 0.09
412 17 0.04
413 265 0.68
414 35 0.09
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (409 bp):
TTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGACTACACTCAG
CTCCAAGGCGCAACATTTACAGCATAACTTAAGTCGAGAAGGGCTATCTACCAAAGACCCTCGAG
TTCGACTACACTCAACTCCGAAGGCACATCATTTACAGTACAACATAAGGCGAGAAGGGTTATCT
CCAACCAAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGCATAGCTT
AAGTCGAGAAGGGCTAACTACCAAAGACCCTCAAGTTCGATTACACTCAGCTTCAAGGGAACATC
ATTTACAACATAACTCAAGGCTAAAAGGGTTATCTCTCAACAAAGACCTTCAAGTTCGATTACAC
TCAGCTCAAAGGCACATCA
Found at i:784001 original size:38 final size:36
Alignment explanation
Indices: 783959--784491 Score: 333
Period size: 36 Copynumber: 14.2 Consensus size: 36
783949 GTGTGTATAT
**
783959 ATATATAGTAATATAGTTTTTGAAAATGTTTTGACAAA
1 ATATATAGT-ATATAGTTTTTGAAAACATTTTGA-AAA
* * *
783997 ATATA-ATGTA-A-AATTTTCGATAAATGATTTTCGAAAATAA
1 ATATATA-GTATATAGTTTTTGA-AAA-CATTTT-G--AA-AA
* * *
784037 ATATATATTATATAGTTTTTGAAAACGTTTTTAAAA
1 ATATATAGTATATAGTTTTTGAAAACATTTTGAAAA
* *
784073 TATATATAGTATAT-GGTTTTGAAAAAATATTTTGAAAA
1 -ATATATAGTATATAGTTTTTG--AAAACATTTTGAAAA
* * *
784111 CATTTATATATTATATAGGTTTT-AAAACATTTTGAAAGT
1 -A--TATATAGTATATAGTTTTTGAAAACATTTTGAAA-A
* *
784150 ATATATAATATATAGTTTTT-AAAACATTTTGAAAGT
1 ATATATAGTATATAGTTTTTGAAAACATTTTGAAA-A
*
784186 ATATATAATATATAGTTTTT-AAAACATTTTGAAAA
1 ATATATAGTATATAGTTTTTGAAAACATTTTGAAAA
*
784221 CATATAT--TATATAATTTTT-AAAACATTTTTGAAAA
1 -ATATATAGTATATAGTTTTTGAAAACA-TTTTGAAAA
* *
784256 CATTTATATAATATATAATTTTT-AAAATCATTTT-AAAA
1 -A--TATATAGTATATAGTTTTTGAAAA-CATTTTGAAAA
* *
784294 ACTTATATAATATATAGCTTTT-AAAATCATTTT-AAAA
1 A--TATATAGTATATAGTTTTTGAAAA-CATTTTGAAAA
*
784331 ACTTATATAATATATAGTTTTTGAAAACATTTTTGAAAA
1 A--TATATAGTATATAGTTTTTGAAAACA-TTTTGAAAA
*
784370 CATTTATATAATATATAG-TTTT-AAAATCATTTTGAAAA
1 -A--TATATAGTATATAGTTTTTGAAAA-CATTTTGAAAA
* * *
784408 CTTATATAATATATAGTTTTTGAAAATAATTTTGAAAA
1 -ATATATAGTATATAGTTTTTGAAAA-CATTTTGAAAA
* * *
784446 CTTATATATAATATATAATTTTTTAAAACATTTTTGAAAA
1 ---ATATATAGTATATAGTTTTTGAAAACA-TTTTGAAAA
*
784486 TTATAT
1 ATATAT
784492 GATTTAAAAA
Statistics
Matches: 425, Mismatches: 36, Indels: 69
0.80 0.07 0.13
Matches are distributed among these distances:
34 17 0.04
35 18 0.04
36 99 0.23
37 91 0.21
38 76 0.18
39 32 0.08
40 74 0.17
41 11 0.03
42 7 0.02
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.44
Consensus pattern (36 bp):
ATATATAGTATATAGTTTTTGAAAACATTTTGAAAA
Found at i:784168 original size:76 final size:75
Alignment explanation
Indices: 784038--784485 Score: 449
Period size: 76 Copynumber: 5.9 Consensus size: 75
784028 CGAAAATAAA
* * * * *
784038 TATATATTATATAGTTTTTGAAAACGTTTTTAAAATATATATAGTATATGGTTTTGAAAAAATAT
1 TATATAATATATAGTTTTTGAAAACATTTTGAAAATATATATAATATATAGTTTT--AAAAATAT
784103 TTTGAAAACATT
64 TTTGAAAACATT
* * * * *
784115 TATATATTATATAGGTTTT-AAAACATTTTGAAAGTATATATAATATATAGTTTTTAAAACATTT
1 TATATAATATATAGTTTTTGAAAACATTTTGAAAATATATATAATATATAGTTTTAAAAATATTT
* *
784179 TG-AAA-GTA
66 TGAAAACATT
* * *
784187 TATATAATATATAGTTTTT-AAAACATTTTGAAAACATATATTATATA-ATTTTTAAAACAT-TT
1 TATATAATATATAGTTTTTGAAAACATTTTGAAAATATATATAATATATAGTTTTAAAA-ATATT
784249 TTGAAAACATT
65 TTGAAAACATT
* *
784260 TATATAATATATAATTTTT-AAAATCATTTTAAAAACT-TATATAATATATAGCTTTT-AAAATC
1 TATATAATATATAGTTTTTGAAAA-CATTTTGAAAA-TATATATAATATATAG-TTTTAAAAAT-
*
784322 ATTTT-AAAA-ACT
62 ATTTTGAAAACATT
*
784334 TATATAATATATAGTTTTTGAAAACATTTTTGAAAACATTTATATAATATATAGTTTT-AAAATC
1 TATATAATATATAGTTTTTGAAAACA-TTTTG-AAA-ATATATATAATATATAGTTTTAAAAAT-
784398 ATTTTGAAAAC--T
62 ATTTTGAAAACATT
* *
784410 TATATAATATATAGTTTTTGAAAATAATTTTGAAAACTTATATATAATATATAATTTTTTAAAAC
1 TATATAATATATAGTTTTTGAAAA-CATTTTGAAAA--TATATATAATATAT-A-GTTTTAAAA-
784475 AT-TTTTGAAAA
60 ATATTTTGAAAA
784486 TTATATGATT
Statistics
Matches: 317, Mismatches: 31, Indels: 45
0.81 0.08 0.11
Matches are distributed among these distances:
71 13 0.04
72 47 0.15
73 26 0.08
74 55 0.17
75 19 0.06
76 100 0.32
77 39 0.12
78 13 0.04
79 3 0.01
80 2 0.01
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.45
Consensus pattern (75 bp):
TATATAATATATAGTTTTTGAAAACATTTTGAAAATATATATAATATATAGTTTTAAAAATATTT
TGAAAACATT
Found at i:784215 original size:11 final size:11
Alignment explanation
Indices: 784201--784260 Score: 59
Period size: 11 Copynumber: 5.3 Consensus size: 11
784191 TAATATATAG
784201 TTTTTAAAACA
1 TTTTTAAAACA
*
784212 TTTTGAAAACA
1 TTTTTAAAACA
* *
784223 TATATTATATA-A
1 T-TTTTA-AAACA
784235 TTTTTAAAACA
1 TTTTTAAAACA
784246 TTTTTGAAAACA
1 TTTTT-AAAACA
784258 TTT
1 TTT
784261 ATATAATATA
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
10 2 0.05
11 21 0.54
12 14 0.36
13 2 0.05
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.47
Consensus pattern (11 bp):
TTTTTAAAACA
Found at i:784365 original size:12 final size:12
Alignment explanation
Indices: 784348--784374 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
784338 TAATATATAG
784348 TTTTTGAAAACA
1 TTTTTGAAAACA
784360 TTTTTGAAAACA
1 TTTTTGAAAACA
784372 TTT
1 TTT
784375 ATATAATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.48
Consensus pattern (12 bp):
TTTTTGAAAACA
Found at i:784598 original size:7 final size:7
Alignment explanation
Indices: 784586--784622 Score: 56
Period size: 7 Copynumber: 5.0 Consensus size: 7
784576 TTTTTAAAAA
784586 TATTTTT
1 TATTTTT
784593 TATTTTT
1 TATTTTT
784600 TATTTTT
1 TATTTTT
784607 TATATTATT
1 TAT-TT-TT
784616 TATTTTT
1 TATTTTT
784623 ATCAGTATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 19 0.68
8 4 0.14
9 5 0.18
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (7 bp):
TATTTTT
Found at i:784651 original size:43 final size:43
Alignment explanation
Indices: 784562--784652 Score: 103
Period size: 43 Copynumber: 2.1 Consensus size: 43
784552 TTTAAAAAAG
* ** *
784562 TTTATATTATATTGTTTTTAAAAATATTTTTTATTTTTTATTT
1 TTTATATTATATTATTTTTAAAAATATTTTTTATTACTTATAT
** *
784605 TTTATATTAT-TTATTTTTATCAGTATTATTTTATTACTTATAT
1 TTTATATTATATTATTTTTAAAAATATT-TTTTATTACTTATAT
784648 TTTAT
1 TTTAT
784653 TTTTGTTTCA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
42 13 0.32
43 27 0.68
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.68
Consensus pattern (43 bp):
TTTATATTATATTATTTTTAAAAATATTTTTTATTACTTATAT
Found at i:785677 original size:27 final size:26
Alignment explanation
Indices: 785647--785707 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 26
785637 ATTTTATTTA
* *
785647 TTTATTTGTTTATTTATTTTTTTCAAT
1 TTTATTTATTT-TTTATATTTTTCAAT
**
785674 TTTAATTTATTTTTTATATTTTTCCTT
1 TTT-ATTTATTTTTTATATTTTTCAAT
785701 TTTATTT
1 TTTATTT
785708 TCATCTTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
26 4 0.14
27 18 0.62
28 7 0.24
ACGTcount: A:0.18, C:0.05, G:0.02, T:0.75
Consensus pattern (26 bp):
TTTATTTATTTTTTATATTTTTCAAT
Found at i:785696 original size:20 final size:19
Alignment explanation
Indices: 785639--785696 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 19
785629 TCATTTTCAT
785639 TTTATTTATTTAT-TTGTTTA
1 TTTATTT-TTTATATT-TTTA
*
785659 TTTATTTTTT-TCAATTTTAA
1 TTTATTTTTTAT--ATTTTTA
785679 TTTATTTTTTATATTTTT
1 TTTATTTTTTATATTTTT
785697 CCTTTTTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
18 1 0.03
19 8 0.25
20 20 0.62
21 3 0.09
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.76
Consensus pattern (19 bp):
TTTATTTTTTATATTTTTA
Found at i:785746 original size:5 final size:5
Alignment explanation
Indices: 785736--785786 Score: 52
Period size: 5 Copynumber: 10.4 Consensus size: 5
785726 AACCTTTTTA
* **
785736 TTATT TTATT TTATT TTATT ATTATT TGA-- TTATT TTCCT TTATT TTATT
1 TTATT TTATT TTATT TTATT -TTATT TTATT TTATT TTATT TTATT TTATT
785785 TT
1 TT
785787 TCTACTAACT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
3 2 0.05
5 30 0.81
6 5 0.14
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.75
Consensus pattern (5 bp):
TTATT
Found at i:787852 original size:50 final size:50
Alignment explanation
Indices: 787799--787900 Score: 132
Period size: 50 Copynumber: 2.0 Consensus size: 50
787789 TAATTTTAAT
* * * * *
787799 AAAAATTATATTTTATTCAAACTCGTCACTTCAACGTGACGAGTTCAAATA
1 AAAAAATAT-TTTTATTAAAACTCATCACATCAACGTGACAAGTTCAAATA
* *
787850 AAAAAATATTTTTATTAAAACTCATCACATCGACGTGACAAGTTCTAATA
1 AAAAAATATTTTTATTAAAACTCATCACATCAACGTGACAAGTTCAAATA
787900 A
1 A
787901 TACTGTAAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
50 36 0.82
51 8 0.18
ACGTcount: A:0.42, C:0.17, G:0.09, T:0.32
Consensus pattern (50 bp):
AAAAAATATTTTTATTAAAACTCATCACATCAACGTGACAAGTTCAAATA
Found at i:792550 original size:23 final size:23
Alignment explanation
Indices: 792518--792601 Score: 123
Period size: 23 Copynumber: 3.7 Consensus size: 23
792508 TCGTATAAAG
*
792518 GCACCAAAGTGCCATGTAGAATT
1 GCACCGAAGTGCCATGTAGAATT
* *
792541 GCACTGAAGTGCCACGTAGAATT
1 GCACCGAAGTGCCATGTAGAATT
*
792564 GCACCGAAGTGCCGTGTAGAATT
1 GCACCGAAGTGCCATGTAGAATT
*
792587 GCACCGTAGTGCCAT
1 GCACCGAAGTGCCAT
792602 ATAAGATTGT
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 53 1.00
ACGTcount: A:0.29, C:0.24, G:0.26, T:0.21
Consensus pattern (23 bp):
GCACCGAAGTGCCATGTAGAATT
Found at i:799450 original size:23 final size:23
Alignment explanation
Indices: 799424--799476 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
799414 CACCACAACT
*
799424 CGTATAAATACACCGAAATGCCA
1 CGTAGAAATACACCGAAATGCCA
* * *
799447 CGTAGAATTACACCGAAGTGCCG
1 CGTAGAAATACACCGAAATGCCA
799470 CGTAGAA
1 CGTAGAA
799477 TTGCACCGTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.38, C:0.25, G:0.21, T:0.17
Consensus pattern (23 bp):
CGTAGAAATACACCGAAATGCCA
Found at i:799477 original size:23 final size:23
Alignment explanation
Indices: 799432--799492 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 23
799422 CTCGTATAAA
*
799432 TACACCGAAATGCCACGTAGAAT
1 TACACCGAAGTGCCACGTAGAAT
*
799455 TACACCGAAGTGCCGCGTAGAAT
1 TACACCGAAGTGCCACGTAGAAT
* *
799478 TGCACCGTAGTGCCA
1 TACACCGAAGTGCCA
799493 TATAAGATTG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.31, C:0.28, G:0.23, T:0.18
Consensus pattern (23 bp):
TACACCGAAGTGCCACGTAGAAT
Found at i:805146 original size:17 final size:17
Alignment explanation
Indices: 805114--805152 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
805104 CGAACAAATC
805114 AATTTTTTTAGATTTAA
1 AATTTTTTTAGATTTAA
*
805131 CATTTTTTTA-ATTTTAA
1 AATTTTTTTAGA-TTTAA
805148 AATTT
1 AATTT
805153 CATATGATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 1 0.05
17 18 0.95
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (17 bp):
AATTTTTTTAGATTTAA
Found at i:809709 original size:25 final size:25
Alignment explanation
Indices: 809675--809722 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
809665 ATCACTTTTG
*
809675 TTTTTATTTAATTAAGATATGGTTA
1 TTTTTATTTAAGTAAGATATGGTTA
*
809700 TTTTTATTTAAGTAAGATGTGGT
1 TTTTTATTTAAGTAAGATATGGT
809723 CATCACGAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.17, T:0.54
Consensus pattern (25 bp):
TTTTTATTTAAGTAAGATATGGTTA
Found at i:809864 original size:31 final size:30
Alignment explanation
Indices: 809827--809916 Score: 89
Period size: 31 Copynumber: 3.1 Consensus size: 30
809817 TAATTTAATC
* *
809827 ATATTTTTAAATAAATTTCAACATAAAATAT
1 ATATTTTTAAATAAATAT-AAAATAAAATAT
*
809858 ATATTTTTAAATGAATATAAAAT-AAA-AT
1 ATATTTTTAAATAAATATAAAATAAAATAT
* *
809886 AT-TTTTAAAATAAGT-TAATAATAAAATAT
1 ATATTTTTAAATAAATATAA-AATAAAATAT
809915 AT
1 AT
809917 TTAATAAGTT
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
26 3 0.06
27 13 0.26
28 7 0.14
29 7 0.14
30 4 0.08
31 16 0.32
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (30 bp):
ATATTTTTAAATAAATATAAAATAAAATAT
Found at i:809894 original size:26 final size:26
Alignment explanation
Indices: 809849--809965 Score: 95
Period size: 26 Copynumber: 4.6 Consensus size: 26
809839 AAATTTCAAC
*
809849 ATAAAAT-ATATATTTTTAAATGAA-T
1 ATAAAATAAAATATTTTTAAAT-AAGT
809874 ATAAAATAAAATATTTTTAAAATAAGT
1 ATAAAATAAAATATTTTT-AAATAAGT
*
809901 -TAATAATAAAATATATTT-AATAAGT
1 ATAA-AATAAAATATTTTTAAATAAGT
* *
809926 -TAATATAAAAAATATTTTAAATTAA-T
1 ATAAAATAAAATAT-TTTTAAA-TAAGT
*
809952 AT-ATATAAAATATT
1 ATAAAATAAAATATT
809966 ATGAATTTAA
Statistics
Matches: 78, Mismatches: 6, Indels: 16
0.78 0.06 0.16
Matches are distributed among these distances:
24 8 0.10
25 21 0.27
26 27 0.35
27 22 0.28
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (26 bp):
ATAAAATAAAATATTTTTAAATAAGT
Found at i:809908 original size:27 final size:26
Alignment explanation
Indices: 809858--809947 Score: 98
Period size: 27 Copynumber: 3.5 Consensus size: 26
809848 CATAAAATAT
809858 ATATTTTTAAATGAA-TATAA-AATAAA
1 ATATTTTTAAAT-AAGT-TAATAATAAA
809884 ATATTTTTAAAATAAGTTAATAATAAA
1 ATATTTTT-AAATAAGTTAATAATAAA
*
809911 ATATATTT-AATAAGTTAAT-ATAAA
1 ATATTTTTAAATAAGTTAATAATAAA
*
809935 AAATATTTTAAAT
1 ATAT-TTTTAAAT
809948 TAATATATAT
Statistics
Matches: 56, Mismatches: 3, Indels: 10
0.81 0.04 0.14
Matches are distributed among these distances:
24 8 0.14
25 14 0.25
26 16 0.29
27 18 0.32
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (26 bp):
ATATTTTTAAATAAGTTAATAATAAA
Found at i:809910 original size:16 final size:17
Alignment explanation
Indices: 809891--809923 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
809881 AAAATATTTT
809891 TAAAATA-AGTTAATAA
1 TAAAATATAGTTAATAA
*
809907 TAAAATATATTTAATAA
1 TAAAATATAGTTAATAA
809924 GTTAATATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (17 bp):
TAAAATATAGTTAATAA
Found at i:809940 original size:24 final size:24
Alignment explanation
Indices: 809894--809965 Score: 85
Period size: 24 Copynumber: 3.0 Consensus size: 24
809884 ATATTTTTAA
*
809894 AATAAGTTAATAATAAAATATATTT
1 AATAAGTTAAT-ATAAAAAATATTT
809919 AATAAGTTAATATAAAAAATATTT
1 AATAAGTTAATATAAAAAATATTT
*
809943 --TAAATTAATATATATAAAATATT
1 AATAAGTTAATATA-A-AAAATATT
809966 ATGAATTTAA
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
22 11 0.26
23 1 0.02
24 20 0.47
25 11 0.26
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (24 bp):
AATAAGTTAATATAAAAAATATTT
Found at i:809978 original size:26 final size:24
Alignment explanation
Indices: 809900--809979 Score: 62
Period size: 24 Copynumber: 3.4 Consensus size: 24
809890 TTAAAATAAG
*
809900 TTAATA-ATA-AAATATATTTAATAA
1 TTAATATATATAAA-ATATTTGA-AA
*
809924 GTTAATATA-A-AAAATATTTTAAA
1 -TTAATATATATAAAATATTTGAAA
*
809947 TTAATATATATAAAATATTATGAAT
1 TTAATATATATAAAATATT-TGAAA
809972 TTAA-ATAT
1 TTAATATAT
809980 TTATACACTA
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
22 8 0.17
23 3 0.06
24 19 0.40
25 17 0.35
26 1 0.02
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (24 bp):
TTAATATATATAAAATATTTGAAA
Found at i:811369 original size:11 final size:11
Alignment explanation
Indices: 811352--811381 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
811342 TTCTTCTTTC
811352 ACTGTTTTCTA
1 ACTGTTTTCTA
*
811363 GCTGTTTTCTA
1 ACTGTTTTCTA
811374 ACTGTTTT
1 ACTGTTTT
811382 TTGTTTGCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.13, C:0.17, G:0.13, T:0.57
Consensus pattern (11 bp):
ACTGTTTTCTA
Found at i:827600 original size:31 final size:31
Alignment explanation
Indices: 827565--827631 Score: 134
Period size: 31 Copynumber: 2.2 Consensus size: 31
827555 GAGTGTAAAC
827565 CAACAAGTAACAATACTGTTCTCAATGGTGA
1 CAACAAGTAACAATACTGTTCTCAATGGTGA
827596 CAACAAGTAACAATACTGTTCTCAATGGTGA
1 CAACAAGTAACAATACTGTTCTCAATGGTGA
827627 CAACA
1 CAACA
827632 GTTTTGTGGG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.24
Consensus pattern (31 bp):
CAACAAGTAACAATACTGTTCTCAATGGTGA
Found at i:833845 original size:50 final size:49
Alignment explanation
Indices: 833726--833851 Score: 121
Period size: 49 Copynumber: 2.5 Consensus size: 49
833716 TCGTCATATC
** *
833726 GACGTGACGAGTTTTAATAAAAAA-ATATTTGTATTCAAACTTTTTACTT
1 GACGTGACGAG-TTTAATAAAAAATATATTTGTATTCAAACTCATCACTT
* ** * * *
833775 GATGTGATAAAATTTTATAAAAAATATATTT-TATTGAAACTCATCACTT
1 GACGTGA-CGAGTTTAATAAAAAATATATTTGTATTCAAACTCATCACTT
833824 AGACGTGACGAGTTTCAATAAAAAATAT
1 -GACGTGACGAGTTT-AATAAAAAATAT
833852 TATTCGGACA
Statistics
Matches: 59, Mismatches: 14, Indels: 7
0.74 0.17 0.09
Matches are distributed among these distances:
49 35 0.59
50 24 0.41
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.37
Consensus pattern (49 bp):
GACGTGACGAGTTTAATAAAAAATATATTTGTATTCAAACTCATCACTT
Found at i:835221 original size:22 final size:22
Alignment explanation
Indices: 835195--835244 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
835185 TTAAATCACA
*
835195 AAAAGTGCCTTAGCACTAATAC
1 AAAAGTGCCTCAGCACTAATAC
* *
835217 TAAAGTGCCTCAGCACTGATAC
1 AAAAGTGCCTCAGCACTAATAC
835239 AAAAGT
1 AAAAGT
835245 ACATTTGCAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.40, C:0.22, G:0.16, T:0.22
Consensus pattern (22 bp):
AAAAGTGCCTCAGCACTAATAC
Found at i:841210 original size:22 final size:22
Alignment explanation
Indices: 841182--841253 Score: 90
Period size: 22 Copynumber: 3.3 Consensus size: 22
841172 CCATTAAATC
*
841182 ACAAAAGTGCCTTAACACTAAT
1 ACAAAAGTGCCTTAACACTGAT
* * *
841204 ACTAAAGTGCCTCAGCACTGAT
1 ACAAAAGTGCCTTAACACTGAT
* *
841226 ACAAAAGTGCATTCACACTGAT
1 ACAAAAGTGCCTTAACACTGAT
841248 ACAAAA
1 ACAAAA
841254 TTACCATAGT
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.43, C:0.24, G:0.12, T:0.21
Consensus pattern (22 bp):
ACAAAAGTGCCTTAACACTGAT
Found at i:842999 original size:23 final size:23
Alignment explanation
Indices: 842972--843017 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
842962 ACTTAGAGAC
*
842972 ATTTTATATGGCACTTCGGTGCA
1 ATTTTACATGGCACTTCGGTGCA
842995 ATTTTACATGGCACTTCGGTGCA
1 ATTTTACATGGCACTTCGGTGCA
843018 TTTATACGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.37
Consensus pattern (23 bp):
ATTTTACATGGCACTTCGGTGCA
Found at i:854174 original size:20 final size:21
Alignment explanation
Indices: 854149--854189 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
854139 GTTGTGGTCG
854149 TTTCTAGCC-GTTGGGGATGA
1 TTTCTAGCCAGTTGGGGATGA
*
854169 TTTCTAGCCATTTGGGGATGA
1 TTTCTAGCCAGTTGGGGATGA
854190 AATCTTTGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.17, C:0.15, G:0.32, T:0.37
Consensus pattern (21 bp):
TTTCTAGCCAGTTGGGGATGA
Found at i:864567 original size:26 final size:26
Alignment explanation
Indices: 864528--864577 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
864518 ATAAATGAAA
*
864528 AGATTACAATTTTATTAGATCTATTG
1 AGATTACAAGTTTATTAGATCTATTG
864554 AGATTACAAGTTTATTAGATCTAT
1 AGATTACAAGTTTATTAGATCTAT
864578 CGATGTTTCC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.36, C:0.08, G:0.12, T:0.44
Consensus pattern (26 bp):
AGATTACAAGTTTATTAGATCTATTG
Found at i:864721 original size:21 final size:21
Alignment explanation
Indices: 864674--864724 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
864664 CTCATCATCA
*
864674 TCATCGTCATCATCCTCATAC
1 TCATCATCATCATCCTCATAC
* * **
864695 TAATCATCATCTTCCTCATTG
1 TCATCATCATCATCCTCATAC
864716 TCATCATCA
1 TCATCATCA
864725 CTCTCAAACA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.25, C:0.33, G:0.04, T:0.37
Consensus pattern (21 bp):
TCATCATCATCATCCTCATAC
Found at i:865018 original size:21 final size:21
Alignment explanation
Indices: 864994--865042 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
864984 CCATGCGATG
*
864994 ATGGCATATGAACCGGCGGAT
1 ATGGCATATCAACCGGCGGAT
**
865015 ATGGCATATCAATTGGCGGAT
1 ATGGCATATCAACCGGCGGAT
*
865036 GTGGCAT
1 ATGGCAT
865043 GCCAATTGGC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.27, C:0.16, G:0.33, T:0.24
Consensus pattern (21 bp):
ATGGCATATCAACCGGCGGAT
Found at i:865048 original size:21 final size:21
Alignment explanation
Indices: 865008--865059 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
864998 CATATGAACC
*
865008 GGCGGATATGGCATATCAATT
1 GGCGGATATGGCATACCAATT
* *
865029 GGCGGATGTGGCATGCCAATT
1 GGCGGATATGGCATACCAATT
*
865050 GGCAGATATG
1 GGCGGATATG
865060 ACCTCTGAAC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.25, C:0.15, G:0.35, T:0.25
Consensus pattern (21 bp):
GGCGGATATGGCATACCAATT
Found at i:871406 original size:34 final size:34
Alignment explanation
Indices: 871363--871472 Score: 102
Period size: 35 Copynumber: 3.2 Consensus size: 34
871353 GGTAAGAAAT
* *
871363 TTATTTTTATGTTAATAT-TTT-TTTAAATAGTTA
1 TTATTTTTATATTAATATATTTATGTAAATA-TTA
871396 TTATATTTTATATTAATATATTTATGTAAATATTA
1 TTAT-TTTTATATTAATATATTTATGTAAATATTA
* *
871431 TT-TTTTT-TATTAAAATAATATTTATATAATTATTA
1 TTATTTTTATATT--AAT-ATATTTATGTAAATATTA
871466 TTTATTT
1 -TTATTT
871473 AGAATTATTA
Statistics
Matches: 65, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
32 4 0.06
33 8 0.12
34 17 0.26
35 24 0.37
36 9 0.14
37 3 0.05
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (34 bp):
TTATTTTTATATTAATATATTTATGTAAATATTA
Found at i:871452 original size:35 final size:35
Alignment explanation
Indices: 871375--871472 Score: 103
Period size: 35 Copynumber: 2.8 Consensus size: 35
871365 ATTTTTATGT
* *
871375 TAATATTTTTTTAAATAGTTATTATATTTTATATTAA
1 TAATATTTATATAAATA-TTATT-TATTTTATATTAA
*
871412 T-ATATTTATGTAAATATTATTT-TTTT-TATTAAAA
1 TAATATTTATATAAATATTATTTATTTTATATT--AA
*
871446 TAATATTTATATAATTATTATTTATTT
1 TAATATTTATATAAATATTATTTATTT
871473 AGAATTATTA
Statistics
Matches: 53, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
32 4 0.08
33 4 0.08
34 4 0.08
35 24 0.45
36 16 0.30
37 1 0.02
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (35 bp):
TAATATTTATATAAATATTATTTATTTTATATTAA
Found at i:871636 original size:17 final size:17
Alignment explanation
Indices: 871614--871667 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
871604 AATGTTAATA
871614 TTTAAATTTATTTTTAT
1 TTTAAATTTATTTTTAT
* * * *
871631 TTTAAAGTTATTATGAA
1 TTTAAATTTATTTTTAT
* *
871648 TTTATATTAATTTTTAT
1 TTTAAATTTATTTTTAT
871665 TTT
1 TTT
871668 TTATAATGTA
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (17 bp):
TTTAAATTTATTTTTAT
Found at i:873278 original size:21 final size:21
Alignment explanation
Indices: 873252--873363 Score: 163
Period size: 21 Copynumber: 5.3 Consensus size: 21
873242 GCCATCTCCA
873252 CAGGGTTACATTCCGAGCCCG
1 CAGGGTTACATTCCGAGCCCG
873273 CAGGGTTACATTCCGAGCCCG
1 CAGGGTTACATTCCGAGCCCG
*
873294 CAGGGTTACATTCCGAGCCTG
1 CAGGGTTACATTCCGAGCCCG
* *
873315 CAGGGTTATATTCCTAGCCCG
1 CAGGGTTACATTCCGAGCCCG
* *
873336 CCA-GGTTACATGCCTAGCCCG
1 -CAGGGTTACATTCCGAGCCCG
873357 CAGGGTT
1 CAGGGTT
873364 TTATACCATA
Statistics
Matches: 83, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
20 2 0.02
21 79 0.95
22 2 0.02
ACGTcount: A:0.19, C:0.31, G:0.28, T:0.22
Consensus pattern (21 bp):
CAGGGTTACATTCCGAGCCCG
Found at i:873990 original size:34 final size:34
Alignment explanation
Indices: 873885--873991 Score: 142
Period size: 34 Copynumber: 3.1 Consensus size: 34
873875 ATAAATATTT
* *
873885 TTAAAATACAAATTATATTATTGGAAATTTAAAA
1 TTAAAATAAAAATTATATTATTCGAAATTTAAAA
* * *
873919 TAAAAATAAAAATAATATTATTCAAAATTTAAAA
1 TTAAAATAAAAATTATATTATTCGAAATTTAAAA
* * *
873953 TTAAAATATAAATTATAGTATTCGAAATTTAACA
1 TTAAAATAAAAATTATATTATTCGAAATTTAAAA
873987 TTAAA
1 TTAAA
873992 TTTCAACTTA
Statistics
Matches: 62, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 62 1.00
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.36
Consensus pattern (34 bp):
TTAAAATAAAAATTATATTATTCGAAATTTAAAA
Found at i:874620 original size:128 final size:128
Alignment explanation
Indices: 874387--874724 Score: 649
Period size: 128 Copynumber: 2.6 Consensus size: 128
874377 ACAATCCATC
*
874387 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
1 TAGTATCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
874452 GGAAGGCGCGCCCCCGGGAACGCACCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
66 GGAAGGCGCGCCCCCGGGAACGCACCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
874515 TAGTATCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
1 TAGTATCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
*
874580 GGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
66 GGAAGGCGCGCCCCCGGGAACGCACCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
874643 TAGTATCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
1 TAGTATCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
*
874708 GGAAAGCGCGCCCCCGG
66 GGAAGGCGCGCCCCCGG
874725 ATCAAGGAAA
Statistics
Matches: 207, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
128 207 1.00
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (128 bp):
TAGTATCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
GGAAGGCGCGCCCCCGGGAACGCACCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
Found at i:881862 original size:17 final size:19
Alignment explanation
Indices: 881840--881875 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
881830 ATTCCTTTAG
881840 AACAAA-TTTTA-TATAAA
1 AACAAAGTTTTATTATAAA
881857 AACAAAGTTTTATTATAAA
1 AACAAAGTTTTATTATAAA
881876 GCTTTAAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
18 5 0.29
19 6 0.35
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.36
Consensus pattern (19 bp):
AACAAAGTTTTATTATAAA
Found at i:886577 original size:19 final size:19
Alignment explanation
Indices: 886549--886591 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
886539 GAGTTTAATG
* *
886549 TGTAAATGGGCCTTCTGGT
1 TGTAATTGGGCCTTCGGGT
886568 TGTAATTGGGCCTTCGGGT
1 TGTAATTGGGCCTTCGGGT
886587 T-TAAT
1 TGTAAT
886592 GTGCATTTGG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 4 0.18
19 18 0.82
ACGTcount: A:0.16, C:0.14, G:0.30, T:0.40
Consensus pattern (19 bp):
TGTAATTGGGCCTTCGGGT
Found at i:888132 original size:19 final size:19
Alignment explanation
Indices: 888104--888146 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
888094 GAGTTTAATG
* *
888104 TGTAAATGGGCCTTCTGGT
1 TGTAATTGGGCCTTCGGGT
888123 TGTAATTGGGCCTTCGGGT
1 TGTAATTGGGCCTTCGGGT
888142 T-TAAT
1 TGTAAT
888147 GTGCATTTGG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 4 0.18
19 18 0.82
ACGTcount: A:0.16, C:0.14, G:0.30, T:0.40
Consensus pattern (19 bp):
TGTAATTGGGCCTTCGGGT
Found at i:888216 original size:17 final size:17
Alignment explanation
Indices: 888177--888209 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
888167 TTGTAACAAT
*
888177 TAATTATAATATAATAA
1 TAATAATAATATAATAA
888194 TAATAATAATATAATA
1 TAATAATAATATAATA
888210 CTTATAACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TAATAATAATATAATAA
Found at i:889684 original size:19 final size:19
Alignment explanation
Indices: 889656--889698 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
889646 GAGTTTAATG
* *
889656 TGTAAATGGGCCTTCTGGT
1 TGTAATTGGGCCTTCGGGT
889675 TGTAATTGGGCCTTCGGGT
1 TGTAATTGGGCCTTCGGGT
889694 T-TAAT
1 TGTAAT
889699 GTGCATTTGG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 4 0.18
19 18 0.82
ACGTcount: A:0.16, C:0.14, G:0.30, T:0.40
Consensus pattern (19 bp):
TGTAATTGGGCCTTCGGGT
Found at i:890424 original size:4 final size:4
Alignment explanation
Indices: 890409--890442 Score: 61
Period size: 4 Copynumber: 8.8 Consensus size: 4
890399 ATATAATAAT
890409 AATA AA-A AATA AATA AATA AATA AATA AATA AAT
1 AATA AATA AATA AATA AATA AATA AATA AATA AAT
890443 TTGCATAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 3 0.10
4 26 0.90
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:890467 original size:2 final size:2
Alignment explanation
Indices: 890460--890493 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
890450 AAATGTTAAA
890460 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
890494 GAAGTTGGAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:890838 original size:2 final size:2
Alignment explanation
Indices: 890831--890860 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
890821 GACCATTTAA
*
890831 AT AT AT AT AT AT AT AT TT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
890861 TGACAGAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:891374 original size:23 final size:23
Alignment explanation
Indices: 891332--891403 Score: 67
Period size: 23 Copynumber: 3.2 Consensus size: 23
891322 CGTAAGTTAC
*
891332 CAAAAGACAGAGAAAAACGTGTCA
1 CAAAAG-CAAAGAAAAACGTGTCA
*
891356 CAAAAGCAAAGATAAACGTGTCA
1 CAAAAGCAAAGAAAAACGTGTCA
* * * *
891379 -TAAAG-ACAGAGAAACATGTCA
1 CAAAAGCAAAGAAAAACGTGTCA
891400 CAAA
1 CAAA
891404 GACATAATTA
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
21 13 0.32
22 6 0.15
23 15 0.38
24 6 0.15
ACGTcount: A:0.54, C:0.17, G:0.18, T:0.11
Consensus pattern (23 bp):
CAAAAGCAAAGAAAAACGTGTCA
Found at i:904716 original size:36 final size:36
Alignment explanation
Indices: 904675--904750 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
904665 ATTTTCGGGA
*
904675 TTTTGCTATTTTTGGCAAAATTCGAATAAATACGAT
1 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
904711 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
1 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
904747 TTTT
1 TTTT
904751 TTAGCTATAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (36 bp):
TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
Found at i:909717 original size:36 final size:36
Alignment explanation
Indices: 909676--909751 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
909666 ATTTTCGGGA
*
909676 TTTTGCTATTTTTGGCAAAATTCGAATAAATACGAT
1 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
909712 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
1 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
909748 TTTT
1 TTTT
909752 TTAGCTATAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (36 bp):
TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
Found at i:914721 original size:36 final size:36
Alignment explanation
Indices: 914680--914755 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
914670 ATTTTCGGGA
*
914680 TTTTGCTATTTTTGGCAAAATTCGAATAAATACGAT
1 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
914716 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
1 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
914752 TTTT
1 TTTT
914756 TTAGCTATAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (36 bp):
TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
Found at i:918293 original size:25 final size:25
Alignment explanation
Indices: 918265--918351 Score: 83
Period size: 27 Copynumber: 3.4 Consensus size: 25
918255 TTAAATTCAT
918265 AATATTTTATATATATTAACTTAAA
1 AATATTTTATATATATTAACTTAAA
918290 AATA--TTAT-TATATTAACTTATTAA
1 AATATTTTATATATATTAACTTA--AA
*
918314 ATATATTTTATCAT-TAACTTAATTTAAA
1 A-ATATTTTAT-ATAT-A-TTAACTTAAA
918342 AATATTTTAT
1 AATATTTTAT
918352 TTTAAAAAAA
Statistics
Matches: 52, Mismatches: 1, Indels: 16
0.75 0.01 0.23
Matches are distributed among these distances:
22 12 0.23
23 4 0.08
24 3 0.06
25 7 0.13
27 13 0.25
28 4 0.08
29 2 0.04
30 7 0.13
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.51
Consensus pattern (25 bp):
AATATTTTATATATATTAACTTAAA
Found at i:918340 original size:27 final size:25
Alignment explanation
Indices: 918265--918356 Score: 100
Period size: 25 Copynumber: 3.6 Consensus size: 25
918255 TTAAATTCAT
918265 AATATTTTATA-TATA-TTAACTTAAA
1 AATATTTTATATTA-ACTTAA-TTAAA
918290 AATATTATTATATTAACTT-ATTAAA
1 AATATT-TTATATTAACTTAATTAAA
*
918315 TATATTTTATCATTAACTTAATTTAAA
1 AATATTTTAT-ATTAACTTAA-TTAAA
*
918342 AATATTTTATTTTAA
1 AATATTTTATATTAA
918357 AAAAAAATAT
Statistics
Matches: 58, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
24 4 0.07
25 24 0.41
26 12 0.21
27 18 0.31
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (25 bp):
AATATTTTATATTAACTTAATTAAA
Found at i:918364 original size:20 final size:20
Alignment explanation
Indices: 918339--918378 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
918329 AACTTAATTT
*
918339 AAAAATATTTTATTTTAAAA
1 AAAAATATTTTATGTTAAAA
918359 AAAAATATTTTATGTTAAAA
1 AAAAATATTTTATGTTAAAA
918379 TTTATTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (20 bp):
AAAAATATTTTATGTTAAAA
Found at i:918427 original size:32 final size:32
Alignment explanation
Indices: 918391--918455 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
918381 TATTTAAAAG
918391 TATGATTAAATTGATAGAATATGTAAATAATA
1 TATGATTAAATTGATAGAATATGTAAATAATA
* *
918423 TATGATTCAATTGGTAGAATATGTAAATAATA
1 TATGATTAAATTGATAGAATATGTAAATAATA
918455 T
1 T
918456 GGATCAAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.46, C:0.02, G:0.14, T:0.38
Consensus pattern (32 bp):
TATGATTAAATTGATAGAATATGTAAATAATA
Found at i:918574 original size:31 final size:31
Alignment explanation
Indices: 918539--918602 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
918529 GACCACATCA
* *
918539 TAATTAAATAAAAATGAAAGTGATCATATCT
1 TAATTAAATAAAAACGAAAATGATCATATCT
918570 TAATTAAATAAAAACGAAAATGATCATATCT
1 TAATTAAATAAAAACGAAAATGATCATATCT
918601 TA
1 TA
918603 TGTTTTTTGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.53, C:0.08, G:0.08, T:0.31
Consensus pattern (31 bp):
TAATTAAATAAAAACGAAAATGATCATATCT
Found at i:924813 original size:382 final size:381
Alignment explanation
Indices: 924108--924855 Score: 1216
Period size: 382 Copynumber: 2.0 Consensus size: 381
924098 ATCCTCCAAC
*
924108 TATTAAGCCCTTCAATTATTAAAAATTACAAAATGATCACCCGACTATTTCTTATGTTCCAAATT
1 TATTAAGCCCTTCAATTATTAAAAATTACAAAATGATCACCCGACTATTTATTATGTTCCAAATT
924173 CATCCTTTTTAGTTAAAAATTTGATAGTTGTCGAAGTTAGACGTTAATATAATGACTGGGATGTG
66 CATCCTTTTTAGTTAAAAATTTGATAGTTGTCGAAGTTAGACGTTAATATAATGACTGGGATGTG
*
924238 ATAGTCTTTTAAGATTCTATGATCAAATATTATCATATCACAATAAACATGTTAACATTCAGCTT
131 ATAGTCTTTTAAGATTCTAGGATCAAATATTATCATATCACAATAAACATGTTAACATTCAGCTT
* *
924303 AGAATATCATCAATTTTTTAATGAAAAATGATGAGTTTAGGGTATAATGAATAGTCTAGTGATCA
196 AGAATATCATCAATTTTTTAATGAAAAATGATGAGTTTAGGGCATAATAAATAGTCTAGTGATCA
* * ** * * **
924368 TTTTGTAACTTTTAATAGTCGAGGGACTTAATAAAATAGTACCTTATAGTCGAGGGATCATTTAT
261 TTTTGTAACTTTTAATAGTCAAGGAAAATAATAAAACAATAAATTATAGTCGAGGGATCATTTAT
*
924433 GTACTTTACCCTTAATTATTTTACACTTGCATTAAACTTATTTTACCTAGTTACTT
326 GTACTTTACCCTTAATTATTTTACAATTGCATTAAACTTATTTTACCTAGTTACTT
924489 TATTAAGTCCC-TCAATTATTAAAAATTACAAAATGATCACCCGACTATTTATTATGTTCCAAAT
1 TATTAAG-CCCTTCAATTATTAAAAATTACAAAATGATCACCCGACTATTTATTATGTTCCAAAT
* * * * *
924553 TCGTTCTTTTTCAGTTAAAAATTTGATAGTTGTCGAAGTTGGACGTTAATATGATGATTGGGATG
65 TCATCCTTTTT-AGTTAAAAATTTGATAGTTGTCGAAGTTAGACGTTAATATAATGACTGGGATG
* * *
924618 TGATAGTCTTTTGATATTCTAGGA-CAAGATATTATCATATCACAGTAAACA-GATTAACATTCA
129 TGATAGTCTTTTAAGATTCTAGGATCAA-ATATTATCATATCACAATAAACATG-TTAACATTCA
924681 GCTTAGAATATCATCAATTTTTTAATGAAAAATGATGAGTTT-GGGACATAATAAATAGTCTAGT
192 GCTTAGAATATCATCAATTTTTTAATGAAAAATGATGAGTTTAGGG-CATAATAAATAGTCTAGT
* *
924745 GATTATTTTGTAACTTTTAATAGTCAATGAAAATAATAAAACAATAAATTATAGTCGAGGGATCA
256 GATCATTTTGTAACTTTTAATAGTCAAGGAAAATAATAAAACAATAAATTATAGTCGAGGGATCA
924810 TTTATGTACTTTACCCTTAATTATTTTACAATTGCATTAAACTTAT
321 TTTATGTACTTTACCCTTAATTATTTTACAATTGCATTAAACTTAT
924856 ATTATTTTAT
Statistics
Matches: 339, Mismatches: 23, Indels: 9
0.91 0.06 0.02
Matches are distributed among these distances:
381 75 0.22
382 264 0.78
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (381 bp):
TATTAAGCCCTTCAATTATTAAAAATTACAAAATGATCACCCGACTATTTATTATGTTCCAAATT
CATCCTTTTTAGTTAAAAATTTGATAGTTGTCGAAGTTAGACGTTAATATAATGACTGGGATGTG
ATAGTCTTTTAAGATTCTAGGATCAAATATTATCATATCACAATAAACATGTTAACATTCAGCTT
AGAATATCATCAATTTTTTAATGAAAAATGATGAGTTTAGGGCATAATAAATAGTCTAGTGATCA
TTTTGTAACTTTTAATAGTCAAGGAAAATAATAAAACAATAAATTATAGTCGAGGGATCATTTAT
GTACTTTACCCTTAATTATTTTACAATTGCATTAAACTTATTTTACCTAGTTACTT
Found at i:925522 original size:21 final size:21
Alignment explanation
Indices: 925489--925530 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
925479 ATAATTTTAA
* *
925489 AAAATTGAAAGTTTAGGTACT
1 AAAACTGAAAGTTGAGGTACT
*
925510 AAAACTGATAGTTGAGGTACT
1 AAAACTGAAAGTTGAGGTACT
925531 CAATGCATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.07, G:0.21, T:0.31
Consensus pattern (21 bp):
AAAACTGAAAGTTGAGGTACT
Found at i:928766 original size:24 final size:23
Alignment explanation
Indices: 928739--928797 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 23
928729 AAAATATAAA
*
928739 AAATATTAAAATGCT-CAATACATT
1 AAATATTAAAATACTACAA-A-ATT
*
928763 AAATATAAAAATACTACAAAATT
1 AAATATTAAAATACTACAAAATT
928786 AAATTATTAAAA
1 AAA-TATTAAAA
928798 AAATTAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 6 0.20
24 21 0.70
25 3 0.10
ACGTcount: A:0.59, C:0.08, G:0.02, T:0.31
Consensus pattern (23 bp):
AAATATTAAAATACTACAAAATT
Found at i:928999 original size:70 final size:72
Alignment explanation
Indices: 928912--929059 Score: 246
Period size: 70 Copynumber: 2.1 Consensus size: 72
928902 TGTTAGAATG
* *
928912 ATTTAAACTTGTGTAAGTTAAGTTAAAAATCTAGATATCATGTTTCATTA-TTTTTGAGATTTTC
1 ATTTAAACTTATGTAAGTTAAGTTAAAAATCTAGATATCATGTTTCATTATTTTTTCAGATTTTC
928976 AAAACAA
66 AAAACAA
* *
928983 TTTTAAA-TTATGTAAGTTAAGTTAAAAATCTAGATATCATGTTTCATTATTTTTTCAGATTTTT
1 ATTTAAACTTATGTAAGTTAAGTTAAAAATCTAGATATCATGTTTCATTATTTTTTCAGATTTTC
929047 AAAACAA
66 AAAACAA
929054 ATTTAA
1 ATTTAA
929060 TGAAAATACT
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
70 41 0.58
71 30 0.42
ACGTcount: A:0.39, C:0.07, G:0.09, T:0.45
Consensus pattern (72 bp):
ATTTAAACTTATGTAAGTTAAGTTAAAAATCTAGATATCATGTTTCATTATTTTTTCAGATTTTC
AAAACAA
Found at i:930037 original size:15 final size:15
Alignment explanation
Indices: 930014--930073 Score: 77
Period size: 15 Copynumber: 4.1 Consensus size: 15
930004 AATTGGTTTT
930014 CTGGAAAATGAATTA
1 CTGGAAAATGAATTA
*
930029 CTAGAAAATGAATTA
1 CTGGAAAATGAATTA
**
930044 CTGGAATTTGAATT-
1 CTGGAAAATGAATTA
*
930058 CTGGAAAATAAATTA
1 CTGGAAAATGAATTA
930073 C
1 C
930074 ATTTCTAAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
14 11 0.30
15 26 0.70
ACGTcount: A:0.45, C:0.08, G:0.17, T:0.30
Consensus pattern (15 bp):
CTGGAAAATGAATTA
Found at i:930500 original size:8 final size:8
Alignment explanation
Indices: 930478--930557 Score: 54
Period size: 8 Copynumber: 9.6 Consensus size: 8
930468 ATTAGATTAT
*
930478 TATATTAA
1 TATATAAA
930486 TAT-TAAA
1 TATATAAA
930493 TATATAAA
1 TATATAAA
* *
930501 TAATATTAT
1 T-ATATAAA
*
930510 TCATTGTTAAA
1 T-A-TAT-AAA
930521 TATATAAA
1 TATATAAA
*
930529 TATATATA
1 TATATAAA
*
930537 TATATATA
1 TATATAAA
*
930545 TATATATA
1 TATATAAA
930553 TATAT
1 TATAT
930558 TTATTAAAAT
Statistics
Matches: 59, Mismatches: 9, Indels: 8
0.78 0.12 0.11
Matches are distributed among these distances:
7 6 0.10
8 39 0.66
9 9 0.15
10 3 0.05
11 2 0.03
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (8 bp):
TATATAAA
Found at i:930533 original size:2 final size:2
Alignment explanation
Indices: 930520--930557 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
930510 TCATTGTTAA
*
930520 AT AT AT AA 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
930558 TTATTAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:930597 original size:23 final size:23
Alignment explanation
Indices: 930571--930654 Score: 82
Period size: 23 Copynumber: 3.6 Consensus size: 23
930561 TTAAAATAAA
*
930571 AATATAATATCTTATATTATTAT
1 AATATAATATATTATATTATTAT
* *
930594 AATATAATTTATTATTTTATTAT
1 AATATAATATATTATATTATTAT
*
930617 AATATTAAAAATATTATATTA-TATT
1 AATA-T-AATATATTATATTATTA-T
*
930642 ATTATAA-ATATTA
1 AATATAATATATTA
930655 ATAAATATAT
Statistics
Matches: 51, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
22 6 0.12
23 26 0.51
24 4 0.08
25 15 0.29
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.52
Consensus pattern (23 bp):
AATATAATATATTATATTATTAT
Found at i:930606 original size:18 final size:18
Alignment explanation
Indices: 930585--930619 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
930575 TAATATCTTA
930585 TATTATTATAATATAATT
1 TATTATTATAATATAATT
* *
930603 TATTATTTTATTATAAT
1 TATTATTATAATATAAT
930620 ATTAAAAATA
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TATTATTATAATATAATT
Found at i:930636 original size:22 final size:22
Alignment explanation
Indices: 930606--930654 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
930596 TATAATTTAT
*
930606 TATTTTATTATAATATTAAAAA
1 TATTATATTATAATATTAAAAA
* *
930628 TATTATATTATATTATTATAAA
1 TATTATATTATAATATTAAAAA
930650 TATTA
1 TATTA
930655 ATAAATATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
TATTATATTATAATATTAAAAA
Found at i:930644 original size:30 final size:32
Alignment explanation
Indices: 930603--930662 Score: 97
Period size: 30 Copynumber: 1.9 Consensus size: 32
930593 TAATATAATT
*
930603 TATTATTTTATTAT-AATATTAA-AAATATTA
1 TATTATATTATTATAAATATTAATAAATATTA
930633 TATTATATTATTATAAATATTAATAAATAT
1 TATTATATTATTATAAATATTAATAAATAT
930663 ATTTTAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 13 0.48
31 8 0.30
32 6 0.22
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (32 bp):
TATTATATTATTATAAATATTAATAAATATTA
Found at i:930662 original size:22 final size:21
Alignment explanation
Indices: 930523--930674 Score: 65
Period size: 22 Copynumber: 7.5 Consensus size: 21
930513 TTGTTAAATA
930523 TATAAATA-TATAT-ATATA-
1 TATAAATATTATATAATATAT
* *
930541 TATATATA-TATATATATTTAT
1 TATAAATATTATATA-ATATAT
** *
930562 TA-AAATAAAAATATAATATCT
1 TATAAAT-ATTATATAATATAT
*
930583 TAT-ATTA-T-TATAATATAAT
1 TATAAATATTATATAATAT-AT
* * *
930602 T-T-ATTATTTTATTATAATAT
1 TATAAATATTATATAAT-ATAT
* *
930622 TAAAAATATTATATTATATTAT
1 TATAAATATTATATAATA-TAT
930644 TATAAATATTA-ATAAATATAT
1 TATAAATATTATAT-AATATAT
*
930665 TTTAAATATT
1 TATAAATATT
930675 TTAATAATTA
Statistics
Matches: 104, Mismatches: 16, Indels: 25
0.72 0.11 0.17
Matches are distributed among these distances:
18 25 0.24
19 3 0.03
20 16 0.15
21 28 0.27
22 32 0.31
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (21 bp):
TATAAATATTATATAATATAT
Found at i:930948 original size:42 final size:42
Alignment explanation
Indices: 930895--930975 Score: 135
Period size: 42 Copynumber: 1.9 Consensus size: 42
930885 ACCAAACACT
* * *
930895 GGAAAATATTTTTCGAAAAACGAATTACATGAAACAAACGCG
1 GGAAAACATTTTCCGAAAAACGAATAACATGAAACAAACGCG
930937 GGAAAACATTTTCCGAAAAACGAATAACATGAAACAAAC
1 GGAAAACATTTTCCGAAAAACGAATAACATGAAACAAAC
930976 ACGAAATTTC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.51, C:0.16, G:0.15, T:0.19
Consensus pattern (42 bp):
GGAAAACATTTTCCGAAAAACGAATAACATGAAACAAACGCG
Done.