Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold166
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: 2719372
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 17868 characters in sequence are not A, C, G, or T
File 3 of 18
Found at i:384459 original size:31 final size:29
Alignment explanation
Indices: 384388--384459 Score: 94
Period size: 31 Copynumber: 2.4 Consensus size: 29
384378 GATGTAAATT
384388 AAATTAAAAAAA-TAATAATTTTTTATAA
1 AAATTAAAAAAATTAATAATTTTTTATAA
*
384416 AAATTAATAAAATTAGATAAATTTTTT-TAAA
1 AAATTAAAAAAATTA-AT-AATTTTTTAT-AA
384447 AAATTAAAAAAAT
1 AAATTAAAAAAAT
384460 CAACTTTCAC
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
28 11 0.29
29 2 0.05
30 3 0.08
31 22 0.58
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (29 bp):
AAATTAAAAAAATTAATAATTTTTTATAA
Found at i:384810 original size:18 final size:19
Alignment explanation
Indices: 384786--384832 Score: 66
Period size: 18 Copynumber: 2.7 Consensus size: 19
384776 TATTAATTAT
384786 TTATTTTTT-ATT-TAAAA
1 TTATTTTTTAATTATAAAA
384803 -TATTTTTTAATTATAAAA
1 TTATTTTTTAATTATAAAA
384821 TTA-TTTTTAATT
1 TTATTTTTTAATT
384833 GTTATCAAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
16 8 0.30
17 3 0.11
18 14 0.52
19 2 0.07
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
TTATTTTTTAATTATAAAA
Found at i:385649 original size:26 final size:28
Alignment explanation
Indices: 385593--385655 Score: 71
Period size: 26 Copynumber: 2.4 Consensus size: 28
385583 TAATAAATGT
*
385593 AAATATAT-TTTTAATTAAATCATAAAT
1 AAATATATATTTTAATTAAATCATAAAA
385620 AAATATATATTTT-A-TAAAT-ATTAAAA
1 AAATATATATTTTAATTAAATCA-TAAAA
*
385646 AAATAAATAT
1 AAATATATAT
385656 AATTTTTATA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
25 1 0.03
26 18 0.56
27 9 0.28
28 4 0.12
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (28 bp):
AAATATATATTTTAATTAAATCATAAAA
Found at i:385652 original size:30 final size:31
Alignment explanation
Indices: 385616--385691 Score: 93
Period size: 30 Copynumber: 2.5 Consensus size: 31
385606 ATTAAATCAT
*
385616 AAATAAATATATATTTTATAAATA-TTAAAA
1 AAATAAATATATATTTTATAAAAATTTAAAA
*
385646 AAATAAATATA-ATTTTTATAAAAATTTAAGA
1 AAATAAATATATA-TTTTATAAAAATTTAAAA
*
385677 ATATATAATATATAT
1 AAATA-AATATATAT
385692 CTTTTACCCA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
29 1 0.03
30 21 0.54
31 9 0.23
32 7 0.18
33 1 0.03
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (31 bp):
AAATAAATATATATTTTATAAAAATTTAAAA
Found at i:391004 original size:25 final size:25
Alignment explanation
Indices: 390970--391019 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
390960 CCAACGTCTA
390970 CCATAAGTGACACATGCCTCGTGGC
1 CCATAAGTGACACATGCCTCGTGGC
390995 CCATAAGTGACACATGCCTCGTGGC
1 CCATAAGTGACACATGCCTCGTGGC
391020 TTCCACCAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.32, G:0.24, T:0.20
Consensus pattern (25 bp):
CCATAAGTGACACATGCCTCGTGGC
Found at i:394660 original size:33 final size:33
Alignment explanation
Indices: 394618--394682 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
394608 AAGATTGTTT
394618 TATTAAGACAATGTCTGAATTAGGACATACCAC
1 TATTAAGACAATGTCTGAATTAGGACATACCAC
*
394651 TATTAAGACAATGTCTGAATTATGACATACCA
1 TATTAAGACAATGTCTGAATTAGGACATACCA
394683 TGTCAAAGTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.29
Consensus pattern (33 bp):
TATTAAGACAATGTCTGAATTAGGACATACCAC
Found at i:398581 original size:22 final size:22
Alignment explanation
Indices: 398563--398618 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
398553 GGATTTGACA
398563 AAGGGGGAGAAATGCTTTGATT
1 AAGGGGGAGAAATGCTTTGATT
* *
398585 AAGGGGGAGAAATTCTTTAATT
1 AAGGGGGAGAAATGCTTTGATT
398607 AAGGGGGAGAAA
1 AAGGGGGAGAAA
398619 AACGAAAACT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.38, C:0.04, G:0.36, T:0.23
Consensus pattern (22 bp):
AAGGGGGAGAAATGCTTTGATT
Found at i:399218 original size:20 final size:19
Alignment explanation
Indices: 399172--399228 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
399162 TTGTATCGAT
* *
399172 ACATTGTATCAATACATGT
1 ACATTGTATCGATACATGG
*
399191 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
399210 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
399229 AAATTGGCAG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:404579 original size:21 final size:21
Alignment explanation
Indices: 404539--404580 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
404529 AGAGATAAGT
** *
404539 AAAAAATGCTTGATAGCCTTC
1 AAAAAATGCTCAATAACCTTC
404560 AAAAAATGCTCAATAACCTTC
1 AAAAAATGCTCAATAACCTTC
404581 TAAAGTCCTA
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:0.43, C:0.21, G:0.10, T:0.26
Consensus pattern (21 bp):
AAAAAATGCTCAATAACCTTC
Found at i:407628 original size:21 final size:20
Alignment explanation
Indices: 407594--407636 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
407584 TATTAAAAAG
*
407594 TTAGCTAATGAAAATAATGAA
1 TTAGCTAATGAAAACAA-GAA
407615 TTAGCTAA-GAAAAACAAGAA
1 TTAGCTAATG-AAAACAAGAA
407635 TT
1 TT
407637 TGCGTGATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.53, C:0.07, G:0.14, T:0.26
Consensus pattern (20 bp):
TTAGCTAATGAAAACAAGAA
Found at i:407635 original size:20 final size:21
Alignment explanation
Indices: 407594--407636 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
407584 TATTAAAAAG
*
407594 TTAGCTAATGAAAATAATGAA
1 TTAGCTAATGAAAATAAAGAA
407615 TTAGCTAA-GAAAA-ACAAGAA
1 TTAGCTAATGAAAATA-AAGAA
407635 TT
1 TT
407637 TGCGTGATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 11 0.55
21 8 0.40
ACGTcount: A:0.53, C:0.07, G:0.14, T:0.26
Consensus pattern (21 bp):
TTAGCTAATGAAAATAAAGAA
Found at i:411364 original size:21 final size:21
Alignment explanation
Indices: 411335--411375 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
411325 GATGAAGTGA
*
411335 TTTTTGATG-ATTTTGTCTTG
1 TTTTTGATGAATTTGGTCTTG
411355 TTTTTGGATGAATTTGGTCTT
1 TTTTT-GATGAATTTGGTCTT
411376 TAAATTTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 4 0.22
22 9 0.50
ACGTcount: A:0.12, C:0.05, G:0.22, T:0.61
Consensus pattern (21 bp):
TTTTTGATGAATTTGGTCTTG
Found at i:413468 original size:22 final size:22
Alignment explanation
Indices: 413443--413484 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
413433 TTTTTAAAGA
*
413443 TTTGACAAGGGGGGAGAAATGC
1 TTTGACAAAGGGGGAGAAATGC
*
413465 TTTGATAAAGGGGGAGAAAT
1 TTTGACAAAGGGGGAGAAAT
413485 ATGTTTATCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.36, C:0.05, G:0.38, T:0.21
Consensus pattern (22 bp):
TTTGACAAAGGGGGAGAAATGC
Found at i:414121 original size:20 final size:19
Alignment explanation
Indices: 414075--414170 Score: 138
Period size: 19 Copynumber: 4.9 Consensus size: 19
414065 TTGTATTGAT
*
414075 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGG
*
414094 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
*
414113 ACAATTGTATCGATACATGT
1 AC-ATTGTATCGATACATGG
*
414133 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
414152 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
414171 AAATTGGCAG
Statistics
Matches: 68, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
19 35 0.51
20 33 0.49
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:414131 original size:39 final size:39
Alignment explanation
Indices: 414077--414170 Score: 188
Period size: 39 Copynumber: 2.4 Consensus size: 39
414067 GTATTGATAC
414077 ATTGTATCGATACATGTTCATTGTATCGATACATGGACA
1 ATTGTATCGATACATGTTCATTGTATCGATACATGGACA
414116 ATTGTATCGATACATGTTCATTGTATCGATACATGGACA
1 ATTGTATCGATACATGTTCATTGTATCGATACATGGACA
414155 ATTGTATCGATACATG
1 ATTGTATCGATACATG
414171 AAATTGGCAG
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 55 1.00
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (39 bp):
ATTGTATCGATACATGTTCATTGTATCGATACATGGACA
Found at i:415532 original size:13 final size:13
Alignment explanation
Indices: 415514--415539 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
415504 CAATTTTTTG
415514 TGTATCGATACAT
1 TGTATCGATACAT
415527 TGTATCGATACAT
1 TGTATCGATACAT
415540 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:418105 original size:13 final size:13
Alignment explanation
Indices: 418087--418125 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
418077 ATAATCACCC
418087 TGTATCGATACAA
1 TGTATCGATACAA
418100 TGTATCGATACAA
1 TGTATCGATACAA
418113 TGTATCGATACAA
1 TGTATCGATACAA
418126 AGAAAAATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:422071 original size:21 final size:21
Alignment explanation
Indices: 422042--422086 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
422032 AAGTTTTCAT
*
422042 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
422062 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
422084 TTT
1 TTT
422087 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:424326 original size:13 final size:13
Alignment explanation
Indices: 424308--424333 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
424298 CAATTTTTTG
424308 TGTATCGATACAT
1 TGTATCGATACAT
424321 TGTATCGATACAT
1 TGTATCGATACAT
424334 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:429350 original size:21 final size:21
Alignment explanation
Indices: 429306--429351 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
429296 TTGAAAGAAG
*
429306 AAAATAAAGAATTAACTAATA
1 AAAATAAAGAATTAACTAAGA
*
429327 AAAATAATGAATTAA-TAAAGA
1 AAAATAAAGAATTAACT-AAGA
429348 AAAA
1 AAAA
429352 CAAAAACTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 21 0.95
ACGTcount: A:0.70, C:0.02, G:0.07, T:0.22
Consensus pattern (21 bp):
AAAATAAAGAATTAACTAAGA
Found at i:433617 original size:21 final size:21
Alignment explanation
Indices: 433593--433633 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
433583 ACTCAAAACA
433593 TCCTACATTTCAAAATCTAGT
1 TCCTACATTTCAAAATCTAGT
433614 TCCTACATTTCAAAATCTAG
1 TCCTACATTTCAAAATCTAG
433634 CCTTCCAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.34, C:0.24, G:0.05, T:0.37
Consensus pattern (21 bp):
TCCTACATTTCAAAATCTAGT
Found at i:435880 original size:13 final size:13
Alignment explanation
Indices: 435862--435886 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
435852 CAAATTGCAT
435862 TGTATCGATACAA
1 TGTATCGATACAA
435875 TGTATCGATACA
1 TGTATCGATACA
435887 GGTTGCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:435898 original size:33 final size:33
Alignment explanation
Indices: 435841--435906 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
435831 ACACACCCAG
* *
435841 ATGTCTCGATACAAATTGCATTGTATCGATACA
1 ATGTATCGATACAAATTGCATTGTATCAATACA
** *
435874 ATGTATCGATACAGGTTGCTTTGTATCAATACA
1 ATGTATCGATACAAATTGCATTGTATCAATACA
435907 CTATAGAACT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.35
Consensus pattern (33 bp):
ATGTATCGATACAAATTGCATTGTATCAATACA
Found at i:435973 original size:13 final size:13
Alignment explanation
Indices: 435955--435980 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
435945 ACCCTTCAAC
435955 TGTATCGATACAT
1 TGTATCGATACAT
435968 TGTATCGATACAT
1 TGTATCGATACAT
435981 CAAGAATTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:436892 original size:20 final size:18
Alignment explanation
Indices: 436869--436921 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 18
436859 CATATCCAGA
436869 TGTATCGATACATTATGCT-T
1 TGTATCGATACATT-T--TAT
436889 TGTATCGATACATGTTTAT
1 TGTATCGATACAT-TTTAT
436908 TGTATCGATACATT
1 TGTATCGATACATT
436922 GTATCGATAG
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
18 2 0.06
19 14 0.45
20 14 0.45
21 1 0.03
ACGTcount: A:0.26, C:0.13, G:0.15, T:0.45
Consensus pattern (18 bp):
TGTATCGATACATTTTAT
Found at i:436912 original size:19 final size:19
Alignment explanation
Indices: 436888--436973 Score: 76
Period size: 19 Copynumber: 4.8 Consensus size: 19
436878 ACATTATGCT
436888 TTGTATCGATACATGTTTA
1 TTGTATCGATACATGTTTA
436907 TTGTATCGATAC------A
1 TTGTATCGATACATGTTTA
* *
436920 TTGTATCGATAGATGTTTC
1 TTGTATCGATACATGTTTA
***
436939 TTGTATCGATACATGCACAA
1 TTGTATCGATACATG-TTTA
436959 TTGTATCGATACATG
1 TTGTATCGATACATG
436974 AAATTGGCAG
Statistics
Matches: 53, Mismatches: 7, Indels: 13
0.73 0.10 0.18
Matches are distributed among these distances:
13 12 0.23
19 26 0.49
20 15 0.28
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (19 bp):
TTGTATCGATACATGTTTA
Found at i:436924 original size:13 final size:13
Alignment explanation
Indices: 436906--436930 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
436896 ATACATGTTT
436906 ATTGTATCGATAC
1 ATTGTATCGATAC
436919 ATTGTATCGATA
1 ATTGTATCGATA
436931 GATGTTTCTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.40
Consensus pattern (13 bp):
ATTGTATCGATAC
Found at i:436929 original size:32 final size:32
Alignment explanation
Indices: 436888--436952 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
436878 ACATTATGCT
436888 TTGTATCGATACATGTTTATTGTATCGATACA
1 TTGTATCGATACATGTTTATTGTATCGATACA
* *
436920 TTGTATCGATAGATGTTTCTTGTATCGATACA
1 TTGTATCGATACATGTTTATTGTATCGATACA
436952 T
1 T
436953 GCACAATTGT
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:0.26, C:0.12, G:0.17, T:0.45
Consensus pattern (32 bp):
TTGTATCGATACATGTTTATTGTATCGATACA
Found at i:438654 original size:15 final size:15
Alignment explanation
Indices: 438634--438670 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
438624 AACCATCAAA
438634 GATGATGAAGATAAT
1 GATGATGAAGATAAT
*
438649 GATGATGATGATAAT
1 GATGATGAAGATAAT
438664 GATGATG
1 GATGATG
438671 TTGACTCGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.41, C:0.00, G:0.30, T:0.30
Consensus pattern (15 bp):
GATGATGAAGATAAT
Found at i:455861 original size:19 final size:19
Alignment explanation
Indices: 455817--455864 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
455807 TTTTAATCAT
*
455817 TTGTTTGAATAACATCAAA
1 TTGTTTTAATAACATCAAA
455836 TTGTTTTAATAACATCAAA
1 TTGTTTTAATAACATCAAA
455855 TTGTTTTAAT
1 TTGTTTTAAT
455865 TTTAATTGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (19 bp):
TTGTTTTAATAACATCAAA
Found at i:456505 original size:19 final size:18
Alignment explanation
Indices: 456470--456505 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
456460 AAGTTGGTAC
*
456470 AAAATTTTACTTTTTTTA
1 AAAATTTTACTTATTTTA
456488 AAAATTTTCACTTATTTT
1 AAAATTTT-ACTTATTTT
456506 GTTTCTGAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.58
Consensus pattern (18 bp):
AAAATTTTACTTATTTTA
Found at i:459775 original size:21 final size:21
Alignment explanation
Indices: 459732--459784 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
459722 AGGCCAAATA
*
459732 TATCGATACAA-TTCTTGATG
1 TATCGATACAATTTCATGATG
459752 TATCGATACAATTTCAAT-ATG
1 TATCGATACAATTTC-ATGATG
*
459773 TATCAATACAAT
1 TATCGATACAAT
459785 CAAGGGTTAG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 11 0.38
21 17 0.59
22 1 0.03
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.38
Consensus pattern (21 bp):
TATCGATACAATTTCATGATG
Found at i:460498 original size:26 final size:26
Alignment explanation
Indices: 460469--460560 Score: 73
Period size: 26 Copynumber: 3.5 Consensus size: 26
460459 AATTTATATA
460469 ATTTCTCCCTTTTATAACACTTCTCT
1 ATTTCTCCCTTTTATAACACTTCTCT
* **
460495 ATTTCTTCC-TTTA-AA-TGTTCTCCCCCT
1 ATTTCTCCCTTTTATAACACTTCT----CT
*
460522 TTTGTCTCCCTTTTATAACACTTCTCT
1 ATT-TCTCCCTTTTATAACACTTCTCT
*
460549 ATTTCTTCCTTT
1 ATTTCTCCCTTT
460561 AAACGCTCTC
Statistics
Matches: 49, Mismatches: 9, Indels: 16
0.66 0.12 0.22
Matches are distributed among these distances:
23 4 0.08
24 2 0.04
25 4 0.08
26 16 0.33
27 8 0.16
28 5 0.10
29 4 0.08
30 2 0.04
31 4 0.08
ACGTcount: A:0.15, C:0.30, G:0.02, T:0.52
Consensus pattern (26 bp):
ATTTCTCCCTTTTATAACACTTCTCT
Found at i:460535 original size:54 final size:54
Alignment explanation
Indices: 460472--460578 Score: 196
Period size: 54 Copynumber: 2.0 Consensus size: 54
460462 TTATATAATT
* *
460472 TCTCCCTTTTATAACACTTCTCTATTTCTTCCTTTAAATGTTCTCCCCCTTTTG
1 TCTCCCTTTTATAACACTTCTCTATTTCTTCCTTTAAACGCTCTCCCCCTTTTG
460526 TCTCCCTTTTATAACACTTCTCTATTTCTTCCTTTAAACGCTCTCCCCCTTTT
1 TCTCCCTTTTATAACACTTCTCTATTTCTTCCTTTAAACGCTCTCCCCCTTTT
460579 TGTTATAAGC
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.15, C:0.34, G:0.03, T:0.49
Consensus pattern (54 bp):
TCTCCCTTTTATAACACTTCTCTATTTCTTCCTTTAAACGCTCTCCCCCTTTTG
Found at i:465712 original size:33 final size:32
Alignment explanation
Indices: 465658--465723 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 32
465648 AGGTTTTTCA
*
465658 AATGTATCGATACAAAGAAATTTGTATTGATAC
1 AATGTATCGATACAAAGAAA-TTGTATCGATAC
* *
465691 AATGTATCGATATATTA-AAATTGTATCGATAC
1 AATGTATCGATACA-AAGAAATTGTATCGATAC
465723 A
1 A
465724 TTTCGACTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
32 12 0.41
33 16 0.55
34 1 0.03
ACGTcount: A:0.42, C:0.09, G:0.14, T:0.35
Consensus pattern (32 bp):
AATGTATCGATACAAAGAAATTGTATCGATAC
Found at i:465858 original size:21 final size:20
Alignment explanation
Indices: 465811--465867 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 20
465801 AAATTTTCAA
* *
465811 TCATCAAATTCATCGAATCC
1 TCATCAAATTCATCAAATAC
* *
465831 ACTTCAAATTCCATCAAATAC
1 TCATCAAATT-CATCAAATAC
465852 TCATCAAAATTCATCA
1 TCATC-AAATTCATCA
465868 TTTTCTTACA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
20 8 0.28
21 16 0.55
22 5 0.17
ACGTcount: A:0.40, C:0.28, G:0.02, T:0.30
Consensus pattern (20 bp):
TCATCAAATTCATCAAATAC
Found at i:466203 original size:22 final size:22
Alignment explanation
Indices: 466173--466214 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
466163 GCGCCTCTTG
466173 CACCCTAGGCAGCCCACACTAC
1 CACCCTAGGCAGCCCACACTAC
* *
466195 CACCGTAGGTAGCCCACACT
1 CACCCTAGGCAGCCCACACT
466215 CAACCACACC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.26, C:0.45, G:0.17, T:0.12
Consensus pattern (22 bp):
CACCCTAGGCAGCCCACACTAC
Found at i:474979 original size:39 final size:39
Alignment explanation
Indices: 474936--475037 Score: 120
Period size: 39 Copynumber: 2.6 Consensus size: 39
474926 TAATTATTGC
474936 ATAAAAATCTATATAAAT-TAAAAATAACATAAAAATA-AT
1 ATAAAAAT-TATATAAATATAAAAAT-ACATAAAAATATAT
* * * *
474975 ATAAATATGATATAAATATATAAATATATAAAAATATAT
1 ATAAAAATTATATAAATATAAAAATACATAAAAATATAT
475014 ATAAAAATTAT-TAAAGTATAAAAA
1 ATAAAAATTATATAAA-TATAAAAA
475038 ATATATATAA
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
38 22 0.42
39 31 0.58
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (39 bp):
ATAAAAATTATATAAATATAAAAATACATAAAAATATAT
Found at i:475015 original size:28 final size:28
Alignment explanation
Indices: 474968--475055 Score: 99
Period size: 30 Copynumber: 3.1 Consensus size: 28
474958 AATAACATAA
*
474968 AAATA-ATATAAATATGATATAAATATAT
1 AAATATATAAAAATAT-ATATAAATATAT
*
474996 AAATATATAAAAATATATATAAAAATTATT
1 AAATATATAAAAATATATATAAATA-TA-T
*
475026 AAAGTATA-AAAAATATATATAAATTTAT
1 AAA-TATATAAAAATATATATAAATATAT
475054 AA
1 AA
475056 CACAAAAAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
28 16 0.31
29 13 0.25
30 19 0.37
31 4 0.08
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.35
Consensus pattern (28 bp):
AAATATATAAAAATATATATAAATATAT
Found at i:475020 original size:50 final size:49
Alignment explanation
Indices: 474938--475055 Score: 120
Period size: 50 Copynumber: 2.4 Consensus size: 49
474928 ATTATTGCAT
*
474938 AAAAATCTATAT-AA-AT-TAAAAATAACATAAAAATAATATAAA-TATGA
1 AAAAATATATATAAATATATAAAAATAACATAAAAATAAT-TAAAGTAT-A
* * * *
474985 TATAA-ATATATAAATATATAAAAATATATATAAAAATTATTAAAGTATA
1 AAAAATATATATAAATATATAAAAATA-ACATAAAAATAATTAAAGTATA
*
475034 AAAAATATATATAAATTTATAA
1 AAAAATATATATAAATATATAA
475056 CACAAAAAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
46 5 0.09
47 5 0.09
48 2 0.04
49 16 0.28
50 29 0.51
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.33
Consensus pattern (49 bp):
AAAAATATATATAAATATATAAAAATAACATAAAAATAATTAAAGTATA
Found at i:475152 original size:18 final size:19
Alignment explanation
Indices: 475118--475169 Score: 63
Period size: 18 Copynumber: 2.8 Consensus size: 19
475108 TCTTCTTTTT
* *
475118 TTTCTCTTTCCTTTCTCTCC
1 TTTCTTTTTCTTTTCTCT-C
475138 TTT-TTTTT-TTTTCTCTC
1 TTTCTTTTTCTTTTCTCTC
475155 TTTCTTTTTCTTTTC
1 TTTCTTTTTCTTTTC
475170 CCTTCCTTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
17 4 0.14
18 12 0.43
19 9 0.32
20 3 0.11
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (19 bp):
TTTCTTTTTCTTTTCTCTC
Found at i:475178 original size:17 final size:17
Alignment explanation
Indices: 475166--475203 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
475156 TTCTTTTTCT
475166 TTTCCCTTCCTTTCTTC
1 TTTCCCTTCCTTTCTTC
*
475183 TTTCCCTTCCTTTCTCC
1 TTTCCCTTCCTTTCTTC
475200 TTTC
1 TTTC
475204 TTTTTTTTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.00, C:0.42, G:0.00, T:0.58
Consensus pattern (17 bp):
TTTCCCTTCCTTTCTTC
Found at i:475178 original size:21 final size:20
Alignment explanation
Indices: 475118--475207 Score: 59
Period size: 18 Copynumber: 4.7 Consensus size: 20
475108 TCTTCTTTTT
* *
475118 TTTCTCTTTCCTTTCTCTCC
1 TTTCTCTTTCTTTTCCCTCC
* *
475138 TTT-T-TTTTTTTTCTCT-C
1 TTTCTCTTTCTTTTCCCTCC
*
475155 TTTCTTTTTCTTTTCCCTTCC
1 TTTCTCTTTCTTTTCCC-TCC
475176 -TT-TC-TTC-TTTCCCTTCC
1 TTTCTCTTTCTTTTCCC-TCC
475193 TTTCTCCTTTCTTTT
1 TTTCT-CTTTCTTTT
475208 TTTTGCTTTT
Statistics
Matches: 56, Mismatches: 5, Indels: 16
0.73 0.06 0.21
Matches are distributed among these distances:
17 14 0.25
18 16 0.29
19 12 0.21
20 7 0.12
21 4 0.07
22 3 0.05
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTCTCTTTCTTTTCCCTCC
Found at i:476301 original size:23 final size:23
Alignment explanation
Indices: 476275--476346 Score: 76
Period size: 23 Copynumber: 3.2 Consensus size: 23
476265 CTTTTTTTTT
* *
476275 GTTTTAATGGGCTTTCAGTTTAA
1 GTTTTAATGAGCTTTAAGTTTAA
*
476298 G-TTTAGATGAGCTTTTAGTTTAA
1 GTTTTA-ATGAGCTTTAAGTTTAA
* *
476321 ATTTAAATGAG-TTTAAGTTTAA
1 GTTTTAATGAGCTTTAAGTTTAA
476343 GTTT
1 GTTT
476347 ATATTTTATT
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
22 17 0.41
23 21 0.51
24 3 0.07
ACGTcount: A:0.28, C:0.04, G:0.19, T:0.49
Consensus pattern (23 bp):
GTTTTAATGAGCTTTAAGTTTAA
Found at i:476809 original size:2 final size:2
Alignment explanation
Indices: 476802--476832 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
476792 TGAGAGTATT
476802 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
476833 TATTGTTGCT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:483327 original size:49 final size:50
Alignment explanation
Indices: 483239--483352 Score: 178
Period size: 49 Copynumber: 2.3 Consensus size: 50
483229 TTTTCACAAT
* *
483239 TTGTATCGATACATTCTGAGTTTTACCTAGATGTATCGATACA-TTCTTCA
1 TTGTATCGATACATTCTGAGTTTTACCCAAATGTATCGATACATTTC-TCA
483289 TTGTATCGATACATTCTG-GTTTTACCCAAATGTATCGATACATTTCTCA
1 TTGTATCGATACATTCTGAGTTTTACCCAAATGTATCGATACATTTCTCA
*
483338 ATGTATCGATACATT
1 TTGTATCGATACATT
483353 GAGGCATTTT
Statistics
Matches: 60, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
49 39 0.65
50 21 0.35
ACGTcount: A:0.27, C:0.18, G:0.13, T:0.41
Consensus pattern (50 bp):
TTGTATCGATACATTCTGAGTTTTACCCAAATGTATCGATACATTTCTCA
Found at i:485861 original size:79 final size:78
Alignment explanation
Indices: 485698--486265 Score: 570
Period size: 79 Copynumber: 7.2 Consensus size: 78
485688 TCATTGATGT
* * * * *
485698 TTTTATTTCTAAAATACCGATTTTCCACAACCGGAGATACTCCAAACCCTGTTATTTAT-GAGGG
1 TTTTATTTCTAAAACA-TGATTTTTCACAATCGGGGATACTCC-AACCCTGTTATTT-TCGAGGG
* * *
485762 GATGCTCTACCCCTGA
63 GATACTCCAACCCTGA
* *
485778 TTTTATTTTTAAAACACTGATTTTTCACAATCGGGGATACTCTAACCCTGTTATTTTCGAGGGGA
1 TTTTATTTCTAAAACA-TGATTTTTCACAATCGGGGATACTCCAACCCTGTTATTTTCGAGGGGA
* *
485843 TATTCCAACCCTGG
65 TACTCCAACCCTGA
* * * * *
485857 TTTTATTTCCAAAACATCGATTTTCCACCATCGGGGACACTCCAACCCCGTTATTTTCGAGGGGA
1 TTTTATTTCTAAAACAT-GATTTTTCACAATCGGGGATACTCCAACCCTGTTATTTTCGAGGGGA
* *
485922 TACTCCAACCTTGG
65 TACTCCAACCCTGA
* ** **
485936 TTTTATTTCTAAAACACTGATTTTTCACAATCGAGGATACTCCAACCCCATTATTTTCGAGAAGA
1 TTTTATTTCTAAAACA-TGATTTTTCACAATCGGGGATACTCCAACCCTGTTATTTTCGAGGGGA
486001 TACTCCAACCCTGA
65 TACTCCAACCCTGA
* * * * * *
486015 TTTTTTATTTCTAAAACATCAATTTTCCATAATCGAGGATACTCTAACCCTGTTATTTTTGAGGG
1 --TTTTATTTCTAAAACAT-GATTTTTCACAATCGGGGATACTCCAACCCTGTTATTTTCGAGGG
* *
486080 GATATTCCAACCCCGA
63 GATACTCCAACCCTGA
* * * * *
486096 TTTTATTT-TCAAAACATCAATTTTCAACCATCAGGGATACTCCAACCCCGTTA-TTTCTGAGGG
1 TTTTATTTCT-AAAACATGATTTTTC-ACAATCGGGGATACTCCAACCCTGTTATTTTC-GAGGG
*
486159 GATACTCCAACTCTGA
63 GATACTCCAACCCTGA
* * * * * *
486175 TTTAATTTCTAAAACATTGATTTTTCACCATCGAGGATACTCCAACCCTATTGTTTTCGAAGGGA
1 TTTTATTTCTAAAACA-TGATTTTTCACAATCGGGGATACTCCAACCCTGTTATTTTCGAGGGGA
*
486240 TACTCCAA-CCTTA
65 TACTCCAACCCTGA
*
486253 -TTTATCTCTAAAA
1 TTTTATTTCTAAAA
486266 TATTAATTCT
Statistics
Matches: 408, Mismatches: 68, Indels: 27
0.81 0.14 0.05
Matches are distributed among these distances:
77 11 0.03
78 14 0.03
79 267 0.65
80 50 0.12
81 66 0.16
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (78 bp):
TTTTATTTCTAAAACATGATTTTTCACAATCGGGGATACTCCAACCCTGTTATTTTCGAGGGGAT
ACTCCAACCCTGA
Found at i:485990 original size:158 final size:157
Alignment explanation
Indices: 485698--486249 Score: 628
Period size: 158 Copynumber: 3.5 Consensus size: 157
485688 TCATTGATGT
* * *
485698 TTTTATTTCTAAAATACCGATTTTCCACAACCG-GAGATACTCCAAACCCTGTTATTTAT-GAGG
1 TTTTATTTCTAAAACATCGATTTTCCACAATCGAG-GATACTCC-AACCCTGTTATTT-TCGAGG
* * * * *
485761 GGATGCTCTACCCCTGATTTTATTTTTAAAACACTGATTTTTCACAATCGGGGATACTCTAACCC
63 GGATACTCCAACCCTGATTTTA-TTTTAAAACACTGATTTTTCACAATCGAGGATACTCCAACCC
* * *
485826 TGTTATTTTCGAGGGGATATTCCAACCCTGG
127 CGTTATTTTCGAGGGGATACTCCAACCCTGA
* * * * *
485857 TTTTATTTCCAAAACATCGATTTTCCACCATCGGGGACACTCCAACCCCGTTATTTTCGAGGGGA
1 TTTTATTTCTAAAACATCGATTTTCCACAATCGAGGATACTCCAACCCTGTTATTTTCGAGGGGA
* * *
485922 TACTCCAACCTTGGTTTTATTTCTAAAACACTGATTTTTCACAATCGAGGATACTCCAACCCCAT
66 TACTCCAACCCTGATTTTATTT-TAAAACACTGATTTTTCACAATCGAGGATACTCCAACCCCGT
**
485987 TATTTTCGAGAAGATACTCCAACCCTGA
130 TATTTTCGAGGGGATACTCCAACCCTGA
* * * *
486015 TTTTTTATTTCTAAAACATCAATTTTCCATAATCGAGGATACTCTAACCCTGTTATTTTTGAGGG
1 --TTTTATTTCTAAAACATCGATTTTCCACAATCGAGGATACTCCAACCCTGTTATTTTCGAGGG
* * * * *
486080 GATATTCCAACCCCGATTTTATTTTCAAAACA-TCAATTTTCAACCATC-AGGGATACTCCAACC
64 GATACTCCAACCCTGATTTTATTTT-AAAACACTGATTTTTC-ACAATCGA-GGATACTCCAACC
*
486143 CCGTTA-TTTCTGAGGGGATACTCCAACTCTGA
126 CCGTTATTTTC-GAGGGGATACTCCAACCCTGA
* * * * * * *
486175 TTTAATTTCTAAAACATTGATTTTTCACCATCGAGGATACTCCAACCCTATTGTTTTCGAAGGGA
1 TTTTATTTCTAAAACATCGATTTTCCACAATCGAGGATACTCCAACCCTGTTATTTTCGAGGGGA
486240 TACTCCAACC
66 TACTCCAACC
486250 TTATTTATCT
Statistics
Matches: 332, Mismatches: 52, Indels: 19
0.82 0.13 0.05
Matches are distributed among these distances:
157 4 0.01
158 158 0.48
159 48 0.14
160 122 0.37
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (157 bp):
TTTTATTTCTAAAACATCGATTTTCCACAATCGAGGATACTCCAACCCTGTTATTTTCGAGGGGA
TACTCCAACCCTGATTTTATTTTAAAACACTGATTTTTCACAATCGAGGATACTCCAACCCCGTT
ATTTTCGAGGGGATACTCCAACCCTGA
Found at i:486198 original size:239 final size:239
Alignment explanation
Indices: 485778--486249 Score: 700
Period size: 239 Copynumber: 2.0 Consensus size: 239
485768 CTACCCCTGA
* * * *
485778 TTTTATTTTTAAAACACTGATTTTTCACAATCGGGGATACTCTAACCCTGTTATTTTCGAGGGGA
1 TTTTATTTCTAAAACACTAATTTTCCACAATCGAGGATACTCTAACCCTGTTATTTTCGAGGGGA
* * * * *
485843 TATTCCAACCCTGGTTTTATTTCCAAAACATCGATTTTCCACCATCGGGGACACTCCAACCCCGT
66 TATTCCAACCCCGATTTTATTTCCAAAACATCAATTTTCAACCATCAGGGACACTCCAACCCCGT
* *
485908 TATTTTCGAGGGGATACTCCAACCTTGGTTTTATTTCTAAAACACTGATTTTTCACAATCGAGGA
131 TATTTTCGAGGGGATACTCCAACCTTGATTTAATTTCTAAAACACTGATTTTTCACAATCGAGGA
485973 TACTCCAACCCCATTATTTTCG-AGAAGATACTCCAACCCTGATT
196 TACTCCAACCCCATTATTTTCGAAG-AGATACTCCAACCCTGATT
* *
486017 TTTTATTTCTAAAACA-TCAATTTTCCATAATCGAGGATACTCTAACCCTGTTATTTTTGAGGGG
1 TTTTATTTCTAAAACACT-AATTTTCCACAATCGAGGATACTCTAACCCTGTTATTTTCGAGGGG
* *
486081 ATATTCCAACCCCGATTTTATTTTCAAAACATCAATTTTCAACCATCAGGGATACTCCAACCCCG
65 ATATTCCAACCCCGATTTTATTTCCAAAACATCAATTTTCAACCATCAGGGACACTCCAACCCCG
* *
486146 TTA-TTTCTGAGGGGATACTCCAA-CTCTGATTTAATTTCTAAAACATTGATTTTTCACCATCGA
130 TTATTTTC-GAGGGGATACTCCAACCT-TGATTTAATTTCTAAAACACTGATTTTTCACAATCGA
* * *
486209 GGATACTCCAACCCTATTGTTTTCGAAGGGATACTCCAACC
193 GGATACTCCAACCCCATTATTTTCGAAGAGATACTCCAACC
486250 TTATTTATCT
Statistics
Matches: 209, Mismatches: 20, Indels: 8
0.88 0.08 0.03
Matches are distributed among these distances:
238 7 0.03
239 200 0.96
240 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (239 bp):
TTTTATTTCTAAAACACTAATTTTCCACAATCGAGGATACTCTAACCCTGTTATTTTCGAGGGGA
TATTCCAACCCCGATTTTATTTCCAAAACATCAATTTTCAACCATCAGGGACACTCCAACCCCGT
TATTTTCGAGGGGATACTCCAACCTTGATTTAATTTCTAAAACACTGATTTTTCACAATCGAGGA
TACTCCAACCCCATTATTTTCGAAGAGATACTCCAACCCTGATT
Found at i:488190 original size:13 final size:13
Alignment explanation
Indices: 488172--488196 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
488162 CATCATGCTT
488172 TGTATCGATACAA
1 TGTATCGATACAA
488185 TGTATCGATACA
1 TGTATCGATACA
488197 TGTTCATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:488209 original size:19 final size:20
Alignment explanation
Indices: 488185--488237 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
488175 ATCGATACAA
*
488185 TGTATCGATACATGTTC-AT
1 TGTATCGATACATGCTCAAT
* * *
488204 TGTATCAATACTTACTCAAT
1 TGTATCGATACATGCTCAAT
488224 TGTATCGATACATG
1 TGTATCGATACATG
488238 AAAGTGGCAG
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
19 13 0.50
20 13 0.50
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (20 bp):
TGTATCGATACATGCTCAAT
Found at i:492058 original size:19 final size:19
Alignment explanation
Indices: 492014--492069 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
492004 CTGCCAGTTT
* **
492014 CATGTATTGATACAATTGTG
1 CATGTATCGATACAA-TGAA
492034 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
492053 CATGTATCGATACAATG
1 CATGTATCGATACAATG
492070 TATCGATACA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 19 0.58
20 14 0.42
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:492072 original size:13 final size:13
Alignment explanation
Indices: 492054--492080 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
492044 TACAATGAAC
492054 ATGTATCGATACA
1 ATGTATCGATACA
492067 ATGTATCGATACA
1 ATGTATCGATACA
492080 A
1 A
492081 AGCATAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:503403 original size:20 final size:19
Alignment explanation
Indices: 503357--503405 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
503347 GATACATCAT
** *
503357 ATCGATACATGTTCATTGT
1 ATCGATACATACTCATTGC
*
503376 ATCAATACATACTCAATTGC
1 ATCGATACATACTC-ATTGC
503396 ATCGATACAT
1 ATCGATACAT
503406 GAAAGTGGCA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
19 11 0.46
20 13 0.54
ACGTcount: A:0.35, C:0.20, G:0.10, T:0.35
Consensus pattern (19 bp):
ATCGATACATACTCATTGC
Found at i:515489 original size:14 final size:15
Alignment explanation
Indices: 515461--515502 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
515451 TTTTTTTTTC
515461 AAAAGAAAAGGAAGAA
1 AAAAGAAAA-GAAGAA
*
515477 AAAAGAAAA-AAGAG
1 AAAAGAAAAGAAGAA
*
515491 AAAACAAAAGAA
1 AAAAGAAAAGAA
515503 CCTACTTAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 12 0.52
15 2 0.09
16 9 0.39
ACGTcount: A:0.79, C:0.02, G:0.19, T:0.00
Consensus pattern (15 bp):
AAAAGAAAAGAAGAA
Found at i:519239 original size:20 final size:20
Alignment explanation
Indices: 519206--519278 Score: 67
Period size: 20 Copynumber: 3.7 Consensus size: 20
519196 GTAAAAAGAT
* * *
519206 AGAATTTATCGATATAATAA
1 AGAATGTATTGATAAAATAA
* * *
519226 AGAATGTATTGATACATTCA
1 AGAATGTATTGATAAAATAA
* *
519246 TGCATGTA-TGATAAAATAA
1 AGAATGTATTGATAAAATAA
519265 AGAATGTATTGATA
1 AGAATGTATTGATA
519279 CATTCATACA
Statistics
Matches: 40, Mismatches: 12, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
19 14 0.35
20 26 0.65
ACGTcount: A:0.45, C:0.05, G:0.15, T:0.34
Consensus pattern (20 bp):
AGAATGTATTGATAAAATAA
Found at i:519275 original size:39 final size:40
Alignment explanation
Indices: 519212--519321 Score: 152
Period size: 39 Copynumber: 2.8 Consensus size: 40
519202 AGATAGAATT
* *
519212 TATCGATATAATAAAGAATGTATTGATACATTCATGCATG
1 TATCGATAAAATAAAGAATGTATTGATACATTCATACATG
519252 TAT-GATAAAATAAAGAATGTATTGATACATTCATACATG
1 TATCGATAAAATAAAGAATGTATTGATACATTCATACATG
* * *
519291 TATCGATACATTGAAA-AATGTATCGATACAT
1 TATCGATAAAAT-AAAGAATGTATTGATACAT
519322 CTAGGTAAAA
Statistics
Matches: 63, Mismatches: 5, Indels: 4
0.88 0.07 0.06
Matches are distributed among these distances:
39 37 0.59
40 23 0.37
41 3 0.05
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.34
Consensus pattern (40 bp):
TATCGATAAAATAAAGAATGTATTGATACATTCATACATG
Found at i:519291 original size:20 final size:20
Alignment explanation
Indices: 519228--519321 Score: 75
Period size: 20 Copynumber: 4.8 Consensus size: 20
519218 TATAATAAAG
**
519228 AATGTATTGATACATTCATG
1 AATGTATTGATACATTCAAA
* * *
519248 CATGTA-TGATAAAAT-AAA
1 AATGTATTGATACATTCAAA
*
519266 GAATGTATTGATACATTCATA
1 -AATGTATTGATACATTCAAA
* * *
519287 CATGTATCGATACATTGAAA
1 AATGTATTGATACATTCAAA
*
519307 AATGTATCGATACAT
1 AATGTATTGATACAT
519322 CTAGGTAAAA
Statistics
Matches: 57, Mismatches: 14, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
18 1 0.02
19 12 0.21
20 42 0.74
21 2 0.04
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.34
Consensus pattern (20 bp):
AATGTATTGATACATTCAAA
Found at i:519383 original size:24 final size:20
Alignment explanation
Indices: 519267--519372 Score: 77
Period size: 20 Copynumber: 4.8 Consensus size: 20
519257 TAAAATAAAG
* * *
519267 AATGTATTGATACATTCATA
1 AATGTATCGATACATTGAAA
*
519287 CATGTATCGATACATTGAAA
1 AATGTATCGATACATTGAAA
519307 AATGTATCGATACATCTAGGTAAAAAGACA
1 AATGTATCGATACAT-T--G-----A-A-A
519337 GAATGTATCGATACATTGAAA
1 -AATGTATCGATACATTGAAA
519358 AATGTATCGATACAT
1 AATGTATCGATACAT
519373 CTGGGTAAAA
Statistics
Matches: 70, Mismatches: 5, Indels: 22
0.72 0.05 0.23
Matches are distributed among these distances:
20 45 0.64
21 2 0.03
22 1 0.01
23 2 0.03
28 2 0.03
29 1 0.01
30 2 0.03
31 15 0.21
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.30
Consensus pattern (20 bp):
AATGTATCGATACATTGAAA
Found at i:520729 original size:61 final size:61
Alignment explanation
Indices: 520634--521248 Score: 694
Period size: 61 Copynumber: 10.0 Consensus size: 61
520624 CTTTTATTCC
* * *
520634 TTTAGTCCTTAAAAAGTAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCATCT
1 TTTAGTCCTCAAAGAGTAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCT
* * *
520695 TTTAGTCCACAAAGAGTAGGATGGCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCATCT
1 TTTAGTCCTCAAAGAGTAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCT
* * * *
520756 TTTAGTCCTTAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCTACACATGTTGGTGGCACCT
1 TTTAGTCCTCAAAGAGTAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCT
* * *
520817 TTTAGTCCTCAAAGAGTAGGATGCCCTTTCCTTCTAAAGCCGACACAAGTTGGTGGCACCT
1 TTTAGTCCTCAAAGAGTAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCT
* * * * *
520878 TTTAGTCC-CGAAAGAGCAGGA--CACGTTTCCTTTTCAAAGTCCACATAAGCTGGTGGCACCT
1 TTTAGTCCTC-AAAGAGTAGGATGC-CTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCACCT
520939 TTTAGTCCTCAAAGA-TCAGGATGCC-TTTCCTTTTCAAAGCCCACACAAGTTGGTGGCACCT
1 TTTAGTCCTCAAAGAGT-AGGATGCCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCACCT
* * *** * *
521000 TTTAGTTCTCAAAGAGCAGGACATCTTTCCCTTTTAAA-CCCACATAAGTTGGTGGCACCT
1 TTTAGTCCTCAAAGAGTAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCT
* * * * *
521060 TTTAATCCTTAAAGAGCATGA--CACTTTT-CTTTCAAAGCCCACACAAGTTGGTGGCACCT
1 TTTAGTCCTCAAAGAGTAGGATGC-CTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCT
* *
521119 TTTAGTCCTCAAAGAGTAGGATGCC-TTTCCTTTTCAAAGCCCACACAAGTTGGTGGTATCT
1 TTTAGTCCTCAAAGAGTAGGATGCCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCACCT
* * *
521180 TTTAGTCCTTAAA-AGGCAGGATGCCTCTTTCTTTTTCTATCTCAAAGCCCACACAAGTTGGTGG
1 TTTAGTCCTCAAAGA-GTAGGATGCCT-TTTC-----CT-T-TTAAAGCCCACACAAGTTGGTGG
521244 CACCT
57 CACCT
521249 ATCTACTTCA
Statistics
Matches: 474, Mismatches: 55, Indels: 42
0.83 0.10 0.07
Matches are distributed among these distances:
58 7 0.01
59 46 0.10
60 54 0.11
61 324 0.68
62 10 0.02
63 5 0.01
68 2 0.00
69 25 0.05
70 1 0.00
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (61 bp):
TTTAGTCCTCAAAGAGTAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCT
Found at i:520759 original size:29 final size:29
Alignment explanation
Indices: 520664--520759 Score: 97
Period size: 29 Copynumber: 3.2 Consensus size: 29
520654 ATGCCTTTTC
520664 CTTTTAAAGCCCACACAAGTTGGTGGCAT
1 CTTTTAAAGCCCACACAAGTTGGTGGCAT
* * * *
520693 CTTTT--AGTCCACAAAGAGTAGGATGGCTTTT
1 CTTTTAAAGCCCACACA-AGTTGG-TGGC--AT
520724 CCTTTTAAAGCCCACACAAGTTGGTGGCAT
1 -CTTTTAAAGCCCACACAAGTTGGTGGCAT
520754 CTTTTA
1 CTTTTA
520760 GTCCTTAAAG
Statistics
Matches: 52, Mismatches: 8, Indels: 14
0.70 0.11 0.19
Matches are distributed among these distances:
27 8 0.15
28 5 0.10
29 15 0.29
30 1 0.02
31 1 0.02
32 9 0.17
33 5 0.10
34 8 0.15
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (29 bp):
CTTTTAAAGCCCACACAAGTTGGTGGCAT
Found at i:521800 original size:28 final size:30
Alignment explanation
Indices: 521740--521811 Score: 121
Period size: 28 Copynumber: 2.5 Consensus size: 30
521730 CAATCTTCAT
*
521740 TGTATCGATACATTCTAGGTTTTACCTAGA
1 TGTATCGATACATTCTAGGTTTTACCCAGA
521770 TGTATCGATACATTCTA-G-TTTACCCAGA
1 TGTATCGATACATTCTAGGTTTTACCCAGA
521798 TGTATCGATACATT
1 TGTATCGATACATT
521812 TCTCAATGTA
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
28 23 0.56
29 1 0.02
30 17 0.41
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.39
Consensus pattern (30 bp):
TGTATCGATACATTCTAGGTTTTACCCAGA
Found at i:524538 original size:49 final size:50
Alignment explanation
Indices: 524466--524563 Score: 126
Period size: 50 Copynumber: 2.0 Consensus size: 50
524456 TCCAACCTTG
*** * *
524466 ATTTTATTTCCAAAATGTCGA-TTTCCACAATCAGGGATACTCGAACCCC
1 ATTTTATTTCCAAAACACCGATTTTCCACAATCAGGGACACTCCAACCCC
* *
524515 ATTTTATTTCCAAAACACCGATTTTCCACCATCGGGGACACTCCAACCC
1 ATTTTATTTCCAAAACACCGATTTTCCACAATCAGGGACACTCCAACCC
524564 TGTCATTTTC
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
49 18 0.44
50 23 0.56
ACGTcount: A:0.30, C:0.31, G:0.11, T:0.29
Consensus pattern (50 bp):
ATTTTATTTCCAAAACACCGATTTTCCACAATCAGGGACACTCCAACCCC
Found at i:524609 original size:79 final size:79
Alignment explanation
Indices: 524499--524909 Score: 358
Period size: 79 Copynumber: 5.2 Consensus size: 79
524489 TCCACAATCA
* ** * *
524499 GGGATACTCGAACCC-CATTTTATTTCCAAAACACCGATTTTCCACCATCGGGGACACTCCAACC
1 GGGATACTCCAACCCTGGTTTTATTTCTAAAACACCGATTTTCCACCATCGGGGATACTCCAACC
* * *
524563 CTGTCATTTTCGAA
66 CTGTTATTTTTGAG
* * * ** * **
524577 AGGATACTCCAACCCTGGTTTTATTTCTAAAACACCGATTTTTCACAATTAGAGATACTTTAA-C
1 GGGATACTCCAACCCTGGTTTTATTTCTAAAACACCGATTTTCCACCATCGGGGATACTCCAACC
524641 CTCGTTATTTTTGAG
66 CT-GTTATTTTTGAG
* ** * * * * * * ** *
524656 AGGATACTTTAATCTTGATTTTTTATTTCTAAAACACCAATTCTCTATAATCGAGGATACTCCAA
1 GGGATACTCCAACCCTG--GTTTTATTTCTAAAACACCGATTTTCCACCATCGGGGATACTCCAA
* *
524721 CCCCGTTATTTTTGAA
64 CCCTGTTATTTTTGAG
* ** * *
524737 GGGATACTCCAACCCTGGTTTTATTTCCAAAACAATGATTTTCCACCATCGGGGATATTACAACC
1 GGGATACTCCAACCCTGGTTTTATTTCTAAAACACCGATTTTCCACCATCGGGGATACTCCAACC
* *
524802 CTGTTAATTCTGAG
66 CTGTTATTTTTGAG
* * * ** ** * *
524816 GGGATACTCTAGCCCTGATTTTATTTCTAAAACACTAATTTTTTACCATTGGGGATACTCTAACC
1 GGGATACTCCAACCCTGGTTTTATTTCTAAAACACCGATTTTCCACCATCGGGGATACTCCAACC
*
524881 CTGTTGTTTTTGAG
66 CTGTTATTTTTGAG
524895 GGGATACTCCAACCC
1 GGGATACTCCAACCC
524910 CATTTATCTC
Statistics
Matches: 256, Mismatches: 72, Indels: 9
0.76 0.21 0.03
Matches are distributed among these distances:
78 16 0.06
79 181 0.71
81 57 0.22
82 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.35
Consensus pattern (79 bp):
GGGATACTCCAACCCTGGTTTTATTTCTAAAACACCGATTTTCCACCATCGGGGATACTCCAACC
CTGTTATTTTTGAG
Found at i:524715 original size:81 final size:81
Alignment explanation
Indices: 524595--524744 Score: 189
Period size: 81 Copynumber: 1.9 Consensus size: 81
524585 CCAACCCTGG
* * * ** *
524595 TTTTATTTCTAAAACACCGATTTTTCACAATTAGAGATACTTTAACCTCGTTATTTTTG-AGAGG
1 TTTTATTTCTAAAACACCAATTTCTCACAATGAGAGATACTCCAACCCCGTTATTTTTGAAG-GG
524659 ATACTTTAATCTTGATT
65 ATACTTTAATCTTGATT
*
524676 TTTTATTTCTAAAACACCAA-TTCTCTATAATCGAG-GATACTCCAACCCCGTTATTTTTGAAGG
1 TTTTATTTCTAAAACACCAATTTCTC-ACAAT-GAGAGATACTCCAACCCCGTTATTTTTGAAGG
524739 GATACT
64 GATACT
524745 CCAACCCTGG
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
80 4 0.07
81 51 0.86
82 4 0.07
ACGTcount: A:0.30, C:0.18, G:0.11, T:0.41
Consensus pattern (81 bp):
TTTTATTTCTAAAACACCAATTTCTCACAATGAGAGATACTCCAACCCCGTTATTTTTGAAGGGA
TACTTTAATCTTGATT
Found at i:524823 original size:160 final size:158
Alignment explanation
Indices: 524500--524909 Score: 439
Period size: 160 Copynumber: 2.6 Consensus size: 158
524490 CCACAATCAG
* * * * * *
524500 GGATACTCGAACCC-CATTTTATTTCCAAAACACCGATTTTCCACCATCGGGGACACTCCAACCC
1 GGATACTCTAACCCTGATTTTATTTCTAAAACACCAATTTTCTACCATCGGGGATACTCCAACCC
* * * * * * *
524564 TGTCATTTTCGAAAGGATACTCCAACCCTGGTTTTATTTCTAAAACACCGATTTTTCACAATTAG
66 TGTTATTTTTGAAGGGATACTCCAACCCTGGTTTTATTTCCAAAACAACGATTTTCCACAATCAG
* * *
524629 AGATACTTTAACCTCGTTATTTTTGAGA
131 AGATACTTCAACCTCGTTAATTCTGAGA
* * * * ** *
524657 GGATACTTTAATCTTGATTTTTTATTTCTAAAACACCAATTCTCTATAATCGAGGATACTCCAAC
1 GGATACTCTAACCCTGA--TTTTATTTCTAAAACACCAATTTTCTACCATCGGGGATACTCCAAC
* * *
524722 CCCGTTATTTTTGAAGGGATACTCCAACCCTGGTTTTATTTCCAAAACAATGATTTTCCACCATC
64 CCTGTTATTTTTGAAGGGATACTCCAACCCTGGTTTTATTTCCAAAACAACGATTTTCCACAATC
* * *
524787 GGGGATA-TTACAACC-CTGTTAATTCTGAGG
129 AGAGATACTT-CAACCTC-GTTAATTCTGAGA
* * * * *
524817 GGATACTCTAGCCCTGATTTTATTTCTAAAACACTAATTTTTTACCATTGGGGATACTCTAACCC
1 GGATACTCTAACCCTGATTTTATTTCTAAAACACCAATTTTCTACCATCGGGGATACTCCAACCC
* *
524882 TGTTGTTTTTGAGGGGATACTCCAACCC
66 TGTTATTTTTGAAGGGATACTCCAACCC
524910 CATTTATCTC
Statistics
Matches: 204, Mismatches: 44, Indels: 9
0.79 0.17 0.04
Matches are distributed among these distances:
157 10 0.05
158 66 0.32
159 3 0.01
160 125 0.61
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.35
Consensus pattern (158 bp):
GGATACTCTAACCCTGATTTTATTTCTAAAACACCAATTTTCTACCATCGGGGATACTCCAACCC
TGTTATTTTTGAAGGGATACTCCAACCCTGGTTTTATTTCCAAAACAACGATTTTCCACAATCAG
AGATACTTCAACCTCGTTAATTCTGAGA
Found at i:526396 original size:28 final size:25
Alignment explanation
Indices: 526340--526396 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
526330 CCAAAAGCTC
**
526340 TAATAATCTAAGAGCTCTAGTAATT
1 TAATAATCTAAGAGCTCTAGTAAAA
*
526365 TAATAATCTAATAGTCTATCTAGTAAAA
1 TAATAATCTAAGAG-C--TCTAGTAAAA
526393 TAAT
1 TAAT
526397 GCATTCATCC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
25 13 0.50
26 1 0.04
28 12 0.46
ACGTcount: A:0.44, C:0.11, G:0.09, T:0.37
Consensus pattern (25 bp):
TAATAATCTAAGAGCTCTAGTAAAA
Found at i:526775 original size:31 final size:30
Alignment explanation
Indices: 526734--527104 Score: 312
Period size: 31 Copynumber: 12.0 Consensus size: 30
526724 GACTCAGACA
526734 TAGGTGCCACCAACTTGTGTGGGCTTTGAC
1 TAGGTGCCACCAACTTGTGTGGGCTTTGAC
* * *
526764 TCAAGTGCCACCAACTCGTGTAGGCTTTGAC
1 T-AGGTGCCACCAACTTGTGTGGGCTTTGAC
*
526795 TAGGGTGCCACCAACTTGTGTGGACTTTGAC
1 TA-GGTGCCACCAACTTGTGTGGGCTTTGAC
* * * * * *
526826 TTGAATGCCGCCAGCTTATGCGGGCTTTGAC
1 TAG-GTGCCACCAACTTGTGTGGGCTTTGAC
* *
526857 TAGGGTACCACTAACTTGTGTGGGCTTTGAC
1 TA-GGTGCCACCAACTTGTGTGGGCTTTGAC
* * * * *
526888 TCGGGTGCCGCCAGCTTGTGCGAGCTTTGAC
1 T-AGGTGCCACCAACTTGTGTGGGCTTTGAC
*
526919 TTAGGTGCC-GCAAGCTTGTGTGGGCTTTGAC
1 -TAGGTGCCACCAA-CTTGTGTGGGCTTTGAC
* * * * *
526950 TCGGGTGCCGCCAACTTATGCGAGCTTTGAC
1 T-AGGTGCCACCAACTTGTGTGGGCTTTGAC
* * *
526981 TAGAGTGCCACCAGCTTGTATGGGCTTTAAC
1 TAG-GTGCCACCAACTTGTGTGGGCTTTGAC
* * * * * * * *
527012 TCGGGTGTCGCTAGCTTATGCGAGCTTTGAC
1 T-AGGTGCCACCAACTTGTGTGGGCTTTGAC
*
527043 TAAGGTACCACCAACTTGTGTGGGCTTTGAC
1 T-AGGTGCCACCAACTTGTGTGGGCTTTGAC
527074 TAAGGTGCCACCAACTTGTGTGGGCTTTGAC
1 T-AGGTGCCACCAACTTGTGTGGGCTTTGAC
527105 ATTTTAAGGC
Statistics
Matches: 263, Mismatches: 67, Indels: 21
0.75 0.19 0.06
Matches are distributed among these distances:
30 7 0.03
31 250 0.95
32 6 0.02
ACGTcount: A:0.18, C:0.24, G:0.29, T:0.29
Consensus pattern (30 bp):
TAGGTGCCACCAACTTGTGTGGGCTTTGAC
Found at i:526852 original size:62 final size:62
Alignment explanation
Indices: 526736--527074 Score: 405
Period size: 62 Copynumber: 5.5 Consensus size: 62
526726 CTCAGACATA
** * * ** *
526736 GGTGCCACCAACTTGTGTGGGCTTTGACTCAAGTGCCACCAACTCGTG-TAGGCTTTGACTAG
1 GGTGCCACCAACTTGTGTGGGCTTTGACTCGGGTGCCGCCAGCTTATGCGA-GCTTTGACTAG
* * ** *
526798 GGTGCCACCAACTTGTGTGGACTTTGACTTGAATGCCGCCAGCTTATGCGGGCTTTGACTAG
1 GGTGCCACCAACTTGTGTGGGCTTTGACTCGGGTGCCGCCAGCTTATGCGAGCTTTGACTAG
* * *
526860 GGTACCACTAACTTGTGTGGGCTTTGACTCGGGTGCCGCCAGCTTGTGCGAGCTTTGACTTA-
1 GGTGCCACCAACTTGTGTGGGCTTTGACTCGGGTGCCGCCAGCTTATGCGAGCTTTGAC-TAG
* *
526922 GGTGCC-GCAAGCTTGTGTGGGCTTTGACTCGGGTGCCGCCAACTTATGCGAGCTTTGACTAG
1 GGTGCCACCAA-CTTGTGTGGGCTTTGACTCGGGTGCCGCCAGCTTATGCGAGCTTTGACTAG
* * * * * * *
526984 AGTGCCACCAGCTTGTATGGGCTTTAACTCGGGTGTCGCTAGCTTATGCGAGCTTTGACTAA
1 GGTGCCACCAACTTGTGTGGGCTTTGACTCGGGTGCCGCCAGCTTATGCGAGCTTTGACTAG
*
527046 GGTACCACCAACTTGTGTGGGCTTTGACT
1 GGTGCCACCAACTTGTGTGGGCTTTGACT
527075 AAGGTGCCAC
Statistics
Matches: 235, Mismatches: 37, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
61 4 0.02
62 227 0.97
63 4 0.02
ACGTcount: A:0.17, C:0.24, G:0.29, T:0.29
Consensus pattern (62 bp):
GGTGCCACCAACTTGTGTGGGCTTTGACTCGGGTGCCGCCAGCTTATGCGAGCTTTGACTAG
Found at i:526884 original size:93 final size:93
Alignment explanation
Indices: 526754--527104 Score: 366
Period size: 93 Copynumber: 3.8 Consensus size: 93
526744 CAACTTGTGT
* * * *
526754 GGGCTTTGACTCA-AGTGCCACCAACTCGTGTAGGCTTTGACTAGGGTGCCACCAACTTGTGTGG
1 GGGCTTTGACT-AGGGTACCACCAACTTGTGTGGGCTTTGACTAGGGTGCCACCAACTTGTGTGG
* *
526818 ACTTTGACTTGAATGCCGCCAGCTTATGC
65 ACTTTGACTTGAGTGCCGCAAGCTTATGC
* * * * *
526847 GGGCTTTGACTAGGGTACCACTAACTTGTGTGGGCTTTGACTCGGGTGCCGCCAGCTTGTG-CGA
1 GGGCTTTGACTAGGGTACCACCAACTTGTGTGGGCTTTGACTAGGGTGCCACCAACTTGTGTGGA
* *
526911 GCTTTGACTT-AGGTGCCGCAAGCTTGTGT
66 -CTTTGACTTGA-GTGCCGCAAGCTTATGC
* * * * * * * * * *
526940 GGGCTTTGACTCGGGTGCCGCCAACTTATGCGAGCTTTGACTAGAGTGCCACCAGCTTGTATGGG
1 GGGCTTTGACTAGGGTACCACCAACTTGTGTGGGCTTTGACTAGGGTGCCACCAACTTGTGTGGA
* * * * *
527005 CTTTAACTCGGGTGTCGCTAGCTTATGC
66 CTTTGACTTGAGTGCCGCAAGCTTATGC
* * * *
527033 GAGCTTTGACTAAGGTACCACCAACTTGTGTGGGCTTTGACTAAGGTGCCACCAACTTGTGTGGG
1 GGGCTTTGACTAGGGTACCACCAACTTGTGTGGGCTTTGACTAGGGTGCCACCAACTTGTGTGGA
527098 CTTTGAC
66 CTTTGAC
527105 ATTTTAAGGC
Statistics
Matches: 207, Mismatches: 46, Indels: 10
0.79 0.17 0.04
Matches are distributed among these distances:
92 4 0.02
93 202 0.98
94 1 0.00
ACGTcount: A:0.17, C:0.24, G:0.30, T:0.29
Consensus pattern (93 bp):
GGGCTTTGACTAGGGTACCACCAACTTGTGTGGGCTTTGACTAGGGTGCCACCAACTTGTGTGGA
CTTTGACTTGAGTGCCGCAAGCTTATGC
Found at i:541434 original size:13 final size:13
Alignment explanation
Indices: 541416--541446 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
541406 ATGCATGAAA
541416 CATAACAAAAATG
1 CATAACAAAAATG
541429 CATAACAAAAATG
1 CATAACAAAAATG
541442 CATAA
1 CATAA
541447 ATAGGGACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.61, C:0.16, G:0.06, T:0.16
Consensus pattern (13 bp):
CATAACAAAAATG
Found at i:542617 original size:17 final size:17
Alignment explanation
Indices: 542595--542630 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
542585 GCATTTTCCA
542595 AAAAGCTCTAATAATCT
1 AAAAGCTCTAATAATCT
*
542612 AAAAGCTCTAGTAATCT
1 AAAAGCTCTAATAATCT
542629 AA
1 AA
542631 TAATCTAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.47, C:0.17, G:0.08, T:0.28
Consensus pattern (17 bp):
AAAAGCTCTAATAATCT
Found at i:542659 original size:28 final size:25
Alignment explanation
Indices: 542603--542659 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
542593 CAAAAAGCTC
**
542603 TAATAATCTAAAAGCTCTAGTAATC
1 TAATAATCTAAAAGCTCTAGTAAAA
*
542628 TAATAATCTAATAGTCTATCTAGTAAAA
1 TAATAATCTAAAAG-C--TCTAGTAAAA
542656 TAAT
1 TAAT
542660 GCATTTGTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
25 13 0.50
26 1 0.04
28 12 0.46
ACGTcount: A:0.46, C:0.12, G:0.07, T:0.35
Consensus pattern (25 bp):
TAATAATCTAAAAGCTCTAGTAAAA
Found at i:543971 original size:32 final size:31
Alignment explanation
Indices: 543935--543994 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 31
543925 GAAATCAAAT
*
543935 ACAAAGAGCT-TAGAAAAATAATAACAATATGA
1 ACAAA-AGCTCTAGAAAAAT-ATAAAAATATGA
*
543967 ACAAAAGCTCTTGAAAAATATAAAAATA
1 ACAAAAGCTCTAGAAAAATATAAAAATA
543995 CTTTGATCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
31 12 0.48
32 13 0.52
ACGTcount: A:0.60, C:0.10, G:0.10, T:0.20
Consensus pattern (31 bp):
ACAAAAGCTCTAGAAAAATATAAAAATATGA
Found at i:546303 original size:13 final size:13
Alignment explanation
Indices: 546285--546322 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
546275 ATAATCCTCC
546285 TGTATCGATACAG
1 TGTATCGATACAG
*
546298 TGTATCGATACAT
1 TGTATCGATACAG
546311 TGTATCGATACA
1 TGTATCGATACA
546323 AAGAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:552195 original size:32 final size:31
Alignment explanation
Indices: 552159--552218 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 31
552149 GAAATCAAAT
*
552159 ACAAAGAGCT-TAGAAAAATAATAACAATATGA
1 ACAAA-AGCTCTAGAAAAAT-ATAAAAATATGA
*
552191 ACAAAAGCTCTTGAAAAATATAAAAATA
1 ACAAAAGCTCTAGAAAAATATAAAAATA
552219 CTTTGATCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
31 12 0.48
32 13 0.52
ACGTcount: A:0.60, C:0.10, G:0.10, T:0.20
Consensus pattern (31 bp):
ACAAAAGCTCTAGAAAAATATAAAAATATGA
Found at i:552516 original size:13 final size:13
Alignment explanation
Indices: 552498--552523 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
552488 CAATTTTTTG
552498 TGTATCGATACAT
1 TGTATCGATACAT
552511 TGTATCGATACAT
1 TGTATCGATACAT
552524 ATTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:552534 original size:32 final size:33
Alignment explanation
Indices: 552478--552541 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 33
552468 TACAAGCCAA
*
552478 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATATTTTGTGTATCGATACAT
552511 TGTATCGATAC-ATATTTTGTGTATCGATACA
1 TGTATCGATACAATATTTTGTGTATCGATACA
552542 AGTTTGGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 19 0.63
33 11 0.37
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (33 bp):
TGTATCGATACAATATTTTGTGTATCGATACAT
Found at i:552535 original size:19 final size:19
Alignment explanation
Indices: 552478--552541 Score: 68
Period size: 19 Copynumber: 3.6 Consensus size: 19
552468 TACAAGCCAA
*
552478 TGTATCGATACAATTTTTTG
1 TGTATCGATAC-ATATTTTG
552498 TGTATCGATAC--A---T-
1 TGTATCGATACATATTTTG
552511 TGTATCGATACATATTTTG
1 TGTATCGATACATATTTTG
552530 TGTATCGATACA
1 TGTATCGATACA
552542 AGTTTGGCTA
Statistics
Matches: 37, Mismatches: 1, Indels: 13
0.73 0.02 0.25
Matches are distributed among these distances:
13 11 0.30
14 1 0.03
15 1 0.03
18 1 0.03
19 12 0.32
20 11 0.30
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (19 bp):
TGTATCGATACATATTTTG
Found at i:552646 original size:20 final size:20
Alignment explanation
Indices: 552593--552648 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
552583 ACATCTTTTT
*
552593 CATGTATCGATACATTGCAA
1 CATGTATCGATACTTTGCAA
552613 CATGTATCGATACTTTG-AA
1 CATGTATCGATACTTTGCAA
*
552632 CTGTGTATCGATACTTT
1 C-ATGTATCGATACTTT
552649 TAAGGGTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 3 0.09
20 30 0.91
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.38
Consensus pattern (20 bp):
CATGTATCGATACTTTGCAA
Found at i:554817 original size:33 final size:34
Alignment explanation
Indices: 554775--554853 Score: 115
Period size: 33 Copynumber: 2.4 Consensus size: 34
554765 ACATAAGTGT
*
554775 TGTATCGATACAATGTATCCATACAT-TTTTCTG
1 TGTATCGATACAATGTATCCATACATCTATTCTG
* * *
554808 TGTATCGATACATTGTATCGATACATCTATTCTT
1 TGTATCGATACAATGTATCCATACATCTATTCTG
554842 TGTATCGATACA
1 TGTATCGATACA
554854 TCTAGGAAGT
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
33 24 0.59
34 17 0.41
ACGTcount: A:0.28, C:0.18, G:0.13, T:0.42
Consensus pattern (34 bp):
TGTATCGATACAATGTATCCATACATCTATTCTG
Found at i:554826 original size:13 final size:13
Alignment explanation
Indices: 554808--554833 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
554798 CATTTTTCTG
554808 TGTATCGATACAT
1 TGTATCGATACAT
554821 TGTATCGATACAT
1 TGTATCGATACAT
554834 CTATTCTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:557333 original size:27 final size:28
Alignment explanation
Indices: 557303--557377 Score: 109
Period size: 27 Copynumber: 2.7 Consensus size: 28
557293 ATTTTTCACA
557303 ATCGGGGATACTCCAACCCCGTTA-ATC
1 ATCGGGGATACTCCAACCCCGTTATATC
*
557330 ATCGGGGATACTCCAACCCCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATATC
*
557358 -TGAGGGGATACTCCAACCCC
1 AT-CGGGGATACTCCAACCCC
557378 TGCTTTATTC
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
27 25 0.57
28 19 0.43
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTATATC
Found at i:557421 original size:79 final size:79
Alignment explanation
Indices: 557330--557508 Score: 297
Period size: 79 Copynumber: 2.3 Consensus size: 79
557320 CCCGTTAATC
** * * *
557330 ATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCTGCTTTA-TTCTTAAAA
1 ATCGGGGATACTCCAACCCCGTTATTTCCAAAGGGATACTCCAACCCCGGCTTTATTTC-CAAAA
557394 TATTGATTTCTCATA
65 TATTGATTTCTCATA
557409 ATCGGGGATACTCCAACCCCGTTATTTCCAAAGGGATACTCCAACCCCGGCTTTATTTCCAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTCCAAAGGGATACTCCAACCCCGGCTTTATTTCCAAAAT
557474 ATTGATTTCTCATA
66 ATTGATTTCTCATA
557488 ATCGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
557509 ATTTTATTTC
Statistics
Matches: 94, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
79 91 0.97
80 3 0.03
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.30
Consensus pattern (79 bp):
ATCGGGGATACTCCAACCCCGTTATTTCCAAAGGGATACTCCAACCCCGGCTTTATTTCCAAAAT
ATTGATTTCTCATA
Found at i:557453 original size:28 final size:30
Alignment explanation
Indices: 557413--557471 Score: 95
Period size: 28 Copynumber: 2.0 Consensus size: 30
557403 CTCATAATCG
557413 GGGATACTCCAACCCC-G-TTATTTCCAAA
1 GGGATACTCCAACCCCGGCTTATTTCCAAA
557441 GGGATACTCCAACCCCGGCTTTATTTCCAAA
1 GGGATACTCCAACCCCGGC-TTATTTCCAAA
557472 ATATTGATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 16 0.57
29 1 0.04
31 11 0.39
ACGTcount: A:0.27, C:0.32, G:0.15, T:0.25
Consensus pattern (30 bp):
GGGATACTCCAACCCCGGCTTATTTCCAAA
Found at i:557501 original size:51 final size:51
Alignment explanation
Indices: 557441--557660 Score: 199
Period size: 51 Copynumber: 4.3 Consensus size: 51
557431 TATTTCCAAA
* * * *
557441 GGGATACTCCAACCCCGGCTTTATTTCCAAAATATTGA-TTTCTCATAATCG
1 GGGATACTCCAACCCCGACTTTATTTCCAAAACATTAATTTTC-CACAATCG
* *
557492 GGGATACTCCAACCCCGATTTTATTTCTAAAACATTAATTTTCCACAATCG
1 GGGATACTCCAACCCCGACTTTATTTCCAAAACATTAATTTTCCACAATCG
* * * * ** **
557543 GGGATACTGCAACCCTGATTTTATTTTCAAAACACCAATTTTCCTTTAATCG
1 GGGATACTCCAACCCCGACTTTATTTCCAAAACATTAATTTTCC-ACAATCG
* * * * ** *
557595 GGGATACTTCAACTCCGATTTTATTTCTAAAAACACCAATTTTTCACAATCG
1 GGGATACTCCAACCCCGACTTTATTTC-CAAAACATTAATTTTCCACAATCG
* *
557647 AGGATACTCTAACC
1 GGGATACTCCAACC
557661 TCATTATTTC
Statistics
Matches: 140, Mismatches: 26, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
51 78 0.56
52 47 0.34
53 15 0.11
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.34
Consensus pattern (51 bp):
GGGATACTCCAACCCCGACTTTATTTCCAAAACATTAATTTTCCACAATCG
Found at i:557616 original size:52 final size:50
Alignment explanation
Indices: 557479--557660 Score: 195
Period size: 52 Copynumber: 3.5 Consensus size: 50
557469 AAAATATTGA
**
557479 TTTCTCATAATCGGGGATACTCCAACCCCGATTTTA-TTTCTAAAACATTAAT
1 TTTC-CATAATCGGGGATACTCCAA-CCCGATTTTATTTTC-AAAACACCAAT
* *
557531 TTTCCACAATCGGGGATACTGCAACCCTGATTTTATTTTCAAAACACCAAT
1 TTTCCATAATCGGGGATACTCCAACCC-GATTTTATTTTCAAAACACCAAT
* * *
557582 TTTCCTTTAATCGGGGATACTTCAACTCCGATTTTATTTCTAAAAACACCAAT
1 TTTCC-ATAATCGGGGATACTCCAAC-CCGATTTTATTT-TCAAAACACCAAT
* * * *
557635 TTTTCACAATCGAGGATACTCTAACC
1 TTTCCATAATCGGGGATACTCCAACC
557661 TCATTATTTC
Statistics
Matches: 111, Mismatches: 14, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
50 3 0.03
51 40 0.36
52 50 0.45
53 18 0.16
ACGTcount: A:0.31, C:0.24, G:0.10, T:0.35
Consensus pattern (50 bp):
TTTCCATAATCGGGGATACTCCAACCCGATTTTATTTTCAAAACACCAAT
Found at i:557679 original size:28 final size:29
Alignment explanation
Indices: 557643--557716 Score: 75
Period size: 28 Copynumber: 2.6 Consensus size: 29
557633 ATTTTTCACA
*
557643 ATCGAGGATACTCTAACCTCATTAT-TTC-
1 ATCGGGGATACTCTAACCT-ATTATCTTCG
* *
557671 ATCGGGGATACTCCAAACCTGTTATCTTCG
1 ATCGGGGATACT-CTAACCTATTATCTTCG
557701 A--GGGGATACTCTAACC
1 ATCGGGGATACTCTAACC
557717 CTGTTATTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
27 5 0.13
28 24 0.62
29 9 0.23
30 1 0.03
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.30
Consensus pattern (29 bp):
ATCGGGGATACTCTAACCTATTATCTTCG
Found at i:568846 original size:20 final size:20
Alignment explanation
Indices: 568803--568848 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
568793 CTTCTTTTCT
*
568803 AAAAAAAAAAAAACAAAAGC
1 AAAAAAAAAAAAACAAAAGA
568823 AAAAAAAAAAAAACAACAA-A
1 AAAAAAAAAAAAACAA-AAGA
568843 AAAAAA
1 AAAAAA
568849 GAAGAATCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 22 0.92
21 2 0.08
ACGTcount: A:0.89, C:0.09, G:0.02, T:0.00
Consensus pattern (20 bp):
AAAAAAAAAAAAACAAAAGA
Found at i:569978 original size:171 final size:170
Alignment explanation
Indices: 569718--570052 Score: 573
Period size: 171 Copynumber: 2.0 Consensus size: 170
569708 CCTTTTCCTT
569718 TTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAA
1 TTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAA
*
569783 GCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGTAGGACACCTTTCAAAGCCCACACAA
66 GCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAA
569848 GTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACACCTC
131 GTTGGTGGCACTTTT-CAGTCCTCAAAGAGCAGGACACCTC
*
569888 TTAAAGCCCACACGAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAA
1 TTAAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAA
* ** *
569953 AGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACG
65 AGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACA
* *
570018 AGTTGGTGGCACTTTTTAGTCCTCAAAGAGTAGGA
130 AGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGA
570053 TACACTTTAT
Statistics
Matches: 155, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
170 26 0.17
171 125 0.81
172 4 0.03
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (170 bp):
TTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAA
GCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAA
GTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACACCTC
Found at i:570053 original size:55 final size:56
Alignment explanation
Indices: 569688--570053 Score: 436
Period size: 55 Copynumber: 6.3 Consensus size: 56
569678 TCCGCTTTTT
569688 AGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTC
1 AGTCCTCAAAGAGCAGGATGCCTTTT-C----AAAGCCCACACAAGTTGGTGGCACCTTTC
569748 AGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGATGC-----CTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
* * ** *
569809 AGTCCCCAAAGAGTAGGACACC-TTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGATGCCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-C
** * *
569864 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACGAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGATGCCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
569919 AGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGATGC-----CTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
* * *
569980 AGTCCTCAAAGAGCAGGATGCC-TTTCAAAGCCCACACGAGTTGGTGGCACTTTTT
1 AGTCCTCAAAGAGCAGGATGCCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
*
570035 AGTCCTCAAAGAGTAGGAT
1 AGTCCTCAAAGAGCAGGAT
570054 ACACTTTATT
Statistics
Matches: 273, Mismatches: 18, Indels: 35
0.84 0.06 0.11
Matches are distributed among these distances:
54 3 0.01
55 138 0.51
56 7 0.03
60 50 0.18
61 69 0.25
64 1 0.00
65 5 0.02
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (56 bp):
AGTCCTCAAAGAGCAGGATGCCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
Found at i:570066 original size:116 final size:115
Alignment explanation
Indices: 569688--570066 Score: 452
Period size: 116 Copynumber: 3.3 Consensus size: 115
569678 TCCGCTTTTT
* *
569688 AGTCCTCAAAGAGCAGGATGC-CTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTCAGT
1 AGTCCTCAAAGAGCAGGATACACTTTT--TTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
*
569751 CCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
64 CCTCAAAGAGCAGGATGC-----C-TTTCAAAGCCCACACGAGTTGGTGGCACCTTTC
* * * *
569809 AGTCCCCAAAGAGTAGG--ACAC---CTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTC
1 AGTCCTCAAAGAGCAGGATACACTTTTTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTC
**
569868 CTCAAAGAGCAGGACACCTCTT-AAAGCCCACACGAGTTGGTGGCACCTTTC
65 CTCAAAGAGCAGGATGCCT-TTCAAAGCCCACACGAGTTGGTGGCACCTTTC
* **
569919 AGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
1 AGTCCTCAAAGAGCAGGATACACTTT-TTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
* *
569984 CTCAAAGAGCAGGATGCCTTTCAAAGCCCACACGAGTTGGTGGCACTTTTT
65 CTCAAAGAGCAGGATGCCTTTCAAAGCCCACACGAGTTGGTGGCACCTTTC
*
570035 AGTCCTCAAAGAGTAGGATACACTTTATTTTC
1 AGTCCTCAAAGAGCAGGATACACTTT-TTTTC
570067 CTCTTTTTTT
Statistics
Matches: 221, Mismatches: 25, Indels: 29
0.80 0.09 0.11
Matches are distributed among these distances:
110 44 0.20
111 3 0.01
112 1 0.00
115 30 0.14
116 123 0.56
117 3 0.01
119 1 0.00
120 1 0.00
121 15 0.07
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.26
Consensus pattern (115 bp):
AGTCCTCAAAGAGCAGGATACACTTTTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCC
TCAAAGAGCAGGATGCCTTTCAAAGCCCACACGAGTTGGTGGCACCTTTC
Found at i:570855 original size:13 final size:13
Alignment explanation
Indices: 570837--570862 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
570827 ATTTGTAGAA
570837 TGTATCGATACAT
1 TGTATCGATACAT
570850 TGTATCGATACAT
1 TGTATCGATACAT
570863 CTATTCTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:573379 original size:28 final size:27
Alignment explanation
Indices: 573309--573383 Score: 98
Period size: 27 Copynumber: 2.7 Consensus size: 27
573299 ATTTTTCACA
573309 ATCGGGGATACTCCAACCCCGTTAATC
1 ATCGGGGATACTCCAACCCCGTTAATC
* *
573336 ATCGGGGATACTCCAACCTCGTT-ATT
1 ATCGGGGATACTCCAACCCCGTTAATC
*
573362 TTCGAGGGGATACTCCAACCCC
1 ATC--GGGGATACTCCAACCCC
573384 TGCTTTATTC
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 4 0.10
27 22 0.52
28 16 0.38
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.24
Consensus pattern (27 bp):
ATCGGGGATACTCCAACCCCGTTAATC
Found at i:573420 original size:79 final size:79
Alignment explanation
Indices: 573336--573514 Score: 297
Period size: 79 Copynumber: 2.3 Consensus size: 79
573326 CCCGTTAATC
* * * *
573336 ATCGGGGATACTCCAACCTCGTTATTTTCGAGGGGATACTCCAACCCCTGCTTTA-TTCTTAAAA
1 ATCGGGGATACTCCAACCTCGTTATTTCCGAAGGGATACTCCAACCCCGGCTTTATTTC-CAAAA
573400 TATTGATTTCTCATA
65 TATTGATTTCTCATA
*
573415 ATCGGGGATACTCCAACCCCGTTATTTCCGAAGGGATACTCCAACCCCGGCTTTATTTCCAAAAT
1 ATCGGGGATACTCCAACCTCGTTATTTCCGAAGGGATACTCCAACCCCGGCTTTATTTCCAAAAT
573480 ATTGATTTCTCATA
66 ATTGATTTCTCATA
573494 ATCGGGGATACTCCAACCTCG
1 ATCGGGGATACTCCAACCTCG
573515 ATTTTATTTC
Statistics
Matches: 93, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
79 90 0.97
80 3 0.03
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.31
Consensus pattern (79 bp):
ATCGGGGATACTCCAACCTCGTTATTTCCGAAGGGATACTCCAACCCCGGCTTTATTTCCAAAAT
ATTGATTTCTCATA
Found at i:573507 original size:51 final size:51
Alignment explanation
Indices: 573447--573665 Score: 233
Period size: 51 Copynumber: 4.3 Consensus size: 51
573437 TATTTCCGAA
** * *** *
573447 GGGATACTCCAACCCCGGCTTTATTTCCAAAATATTGA-TTTCTCATAATCG
1 GGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTC-CACAATCG
* * **
573498 GGGATACTCCAACCTCGATTTTATTTCTAAAACATTAATTTTCCACAATCG
1 GGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCCACAATCG
* * **
573549 GGGATACTACAACCCCGATTTTATTTTCAAAACACCAATTTTCCTTTAATCG
1 GGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCC-ACAATCG
* * * *
573601 GGGATACTCCAACTCCGATTTTATTTCTAAAAAACCAATTTTTCACAATCG
1 GGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCCACAATCG
*
573652 AGGATACTCCAACC
1 GGGATACTCCAACC
573666 TCATTATTTC
Statistics
Matches: 141, Mismatches: 25, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
51 94 0.67
52 47 0.33
ACGTcount: A:0.31, C:0.25, G:0.11, T:0.33
Consensus pattern (51 bp):
GGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCCACAATCG
Found at i:573684 original size:28 final size:30
Alignment explanation
Indices: 573648--573728 Score: 98
Period size: 28 Copynumber: 2.8 Consensus size: 30
573638 ATTTTTCACA
* *
573648 ATCGAGGATACTCCAACCTCATTAT-TTC-
1 ATCGGGGATACTCCAACCCCATTATCTTCG
*
573676 ATCGGGGATACTCCAACCCCGTTATCTTCG
1 ATCGGGGATACTCCAACCCCATTATCTTCG
*
573706 A--GGGGATACTCCAACCCCGTTAT
1 ATCGGGGATACTCCAACCCCATTAT
573729 TATCTCCAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
28 44 0.92
29 3 0.06
30 1 0.02
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.27
Consensus pattern (30 bp):
ATCGGGGATACTCCAACCCCATTATCTTCG
Found at i:581187 original size:33 final size:33
Alignment explanation
Indices: 581124--581188 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
581114 CACACCCAGA
*
581124 TGTATCGATACAAATTGCTAAGTATTGATACAT
1 TGTATCGATACAAATTGCTAAGTATCGATACAT
*
581157 TGTATCGATACAAATTGCTTTA-TATCGATACA
1 TGTATCGATACAAATTGC-TAAGTATCGATACA
581189 CTATGGATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 27 0.93
34 2 0.07
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.37
Consensus pattern (33 bp):
TGTATCGATACAAATTGCTAAGTATCGATACAT
Found at i:582477 original size:20 final size:20
Alignment explanation
Indices: 582427--582478 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 20
582417 CACACCCAGA
*
582427 TGTATCGATAGAAATTGTAT
1 TGTATCGATACAAATTGTAT
* * *
582447 TGTACCAATACAACTTGCT-T
1 TGTATCGATACAAATTG-TAT
582467 TGTATCGATACA
1 TGTATCGATACA
582479 CTATAGAATT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
20 24 0.96
21 1 0.04
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (20 bp):
TGTATCGATACAAATTGTAT
Found at i:588032 original size:32 final size:32
Alignment explanation
Indices: 587990--588065 Score: 134
Period size: 32 Copynumber: 2.4 Consensus size: 32
587980 CATTTCATAG
587990 TGTATCGATACATCTGGGCAAATTTGCCTGCA
1 TGTATCGATACATCTGGGCAAATTTGCCTGCA
* *
588022 TGTATTGATACATTTGGGCAAATTTGCCTGCA
1 TGTATCGATACATCTGGGCAAATTTGCCTGCA
588054 TGTATCGATACA
1 TGTATCGATACA
588066 AAGATCAGTG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.34
Consensus pattern (32 bp):
TGTATCGATACATCTGGGCAAATTTGCCTGCA
Found at i:588113 original size:21 final size:21
Alignment explanation
Indices: 588085--588164 Score: 133
Period size: 21 Copynumber: 3.8 Consensus size: 21
588075 GTATTGATAC
588085 AATGTATCGATACATTTGAGT
1 AATGTATCGATACATTTGAGT
*
588106 AATATATCGATACATTTGAGT
1 AATGTATCGATACATTTGAGT
*
588127 AATGTATTGATACATTTGAGT
1 AATGTATCGATACATTTGAGT
*
588148 AATGTATTGATACATTT
1 AATGTATCGATACATTT
588165 TTTGGCAGTA
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 56 1.00
ACGTcount: A:0.35, C:0.07, G:0.16, T:0.41
Consensus pattern (21 bp):
AATGTATCGATACATTTGAGT
Found at i:588207 original size:19 final size:19
Alignment explanation
Indices: 588183--588267 Score: 101
Period size: 19 Copynumber: 4.7 Consensus size: 19
588173 TAGCTTACAT
588183 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
*
588202 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
588221 TGTATCGATAC---A--T-
1 TGTATCGATACAAAACTTA
*
588234 TGTATCGATACAACACTTTA
1 TGTATCGATACAAAAC-TTA
588254 TGTATCGATACAAA
1 TGTATCGATACAAA
588268 TCGTTGAAAT
Statistics
Matches: 57, Mismatches: 2, Indels: 13
0.79 0.03 0.18
Matches are distributed among these distances:
13 11 0.19
14 1 0.02
16 2 0.04
19 30 0.53
20 13 0.23
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.33
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:588239 original size:13 final size:13
Alignment explanation
Indices: 588221--588245 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
588211 ACAACACTTA
588221 TGTATCGATACAT
1 TGTATCGATACAT
588234 TGTATCGATACA
1 TGTATCGATACA
588246 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:588243 original size:32 final size:33
Alignment explanation
Indices: 588202--588265 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 33
588192 ACAAAACTTA
588202 TGTATCGATACAACAC-TTATGTATCGATACAT
1 TGTATCGATACAACACTTTATGTATCGATACAT
588234 TGTATCGATACAACACTTTATGTATCGATACA
1 TGTATCGATACAACACTTTATGTATCGATACA
588266 AATCGTTGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 16 0.52
33 15 0.48
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.34
Consensus pattern (33 bp):
TGTATCGATACAACACTTTATGTATCGATACAT
Found at i:589268 original size:55 final size:52
Alignment explanation
Indices: 589169--589901 Score: 361
Period size: 43 Copynumber: 15.6 Consensus size: 52
589159 GAAAAGTGAT
* * * * * **
589169 AAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAA
1 AAAG-TGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATG-G-AA
* *
589224 AAAGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAA
1 AAAG-TGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAA
* * *
589277 AATGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT-AA-A--G--
1 AAAGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAA
* * * * *
589323 ---GTGCCAATGTGCTAATTCAAGGCCAGGTACATTGGACTTAAAGA---AG
1 AAAGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAA
* * *
589369 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT-AA-A--G--
1 AAAGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAA
* * *
589415 ---GTGCCAATGTGCTAATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--
1 AAAGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAA
* * * * *
589461 AAGGTACCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AA-A--G--
1 AAAGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAA
* * * * *
589507 ---GTGCCAATGTGCTGATTCAAGGCCAACTATATTGGACTTAAAGA---AG
1 AAAGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAA
* * * *
589553 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AA-A--G--
1 AAAGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAA
* *
589599 ---GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--
1 AAAGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAA
* * *
589645 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTTG-ACTT-AA-A--G--
1 AAAGTGCCAATATGCTGATTCAAGGCCAGCTACA-TTGAACTTAAAGATGGAA
* *
589691 ---GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT-AA-A--G--
1 AAAGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAA
* * * *
589734 ---GTGCCAATGTGCTGATTCAAGGCCAACTACATTGGACTTAAAGA---AG
1 AAAGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAA
* * * *
589780 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AA-A--G--
1 AAAGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAA
* *
589826 ---GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--
1 AAAGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAA
589872 AAAGTGCCAATATGCTGATTCAAGGCCAGC
1 AAAGTGCCAATATGCTGATTCAAGGCCAGC
589902 AATATTGGGC
Statistics
Matches: 579, Mismatches: 55, Indels: 94
0.80 0.08 0.13
Matches are distributed among these distances:
42 3 0.01
43 252 0.44
44 12 0.02
45 6 0.01
46 5 0.01
47 5 0.01
48 11 0.02
49 198 0.34
50 4 0.01
51 2 0.00
52 34 0.06
53 5 0.01
54 1 0.00
55 41 0.07
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (52 bp):
AAAGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAA
Found at i:589408 original size:92 final size:92
Alignment explanation
Indices: 589232--589901 Score: 905
Period size: 92 Copynumber: 7.2 Consensus size: 92
589222 AAAAAGATGT
* * *
589232 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATATGCTGATT
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA---AGAAGGTGCCAATATGCTGATT
589297 CAAGGCCAGCTATATTGGACTTAAAGGTGC
63 CAAGGCCAGCTATATTGGACTTAAAGGTGC
* *
589327 CAATGTGCTAATTCAAGGCCAGGTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAA
589392 GGCCAGCTATATTGGACTTAAAGGTGC
66 GGCCAGCTATATTGGACTTAAAGGTGC
* * *
589419 CAATGTGCTAATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTACCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAA
*
589484 GGCCAGCGATATTGGACTTAAAGGTGC
66 GGCCAGCTATATTGGACTTAAAGGTGC
* *
589511 CAATGTGCTGATTCAAGGCCAACTATATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAA
*
589576 GGCCAGCGATATTGGACTTAAAGGTGC
66 GGCCAGCTATATTGGACTTAAAGGTGC
*
589603 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAA
* *
589668 GGCCAGCGATATTTGACTTAAAGGTGC
66 GGCCAGCTATATTGGACTTAAAGGTGC
*
589695 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTT-----A-AAGGTGCCAATGTGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAA
* *
589754 GGCCAACTACATTGGACTTAAAGAAGAAGGTGC
66 GGCCAGCTATATTGGACTT-----A-AAGGTGC
* * * *
589787 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT-----A-AAGGTGCCAATGTGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAA
*
589846 GGCCAGCTACATTGGACTTAAAGATGAAAGTGC
66 GGCCAGCTATATTGGACTT-AA-A-G---GTGC
*
589879 CAATATGCTGATTCAAGGCCAGC
1 CAATGTGCTGATTCAAGGCCAGC
589902 AATATTGGGC
Statistics
Matches: 536, Mismatches: 28, Indels: 25
0.91 0.05 0.04
Matches are distributed among these distances:
86 37 0.07
87 1 0.00
88 3 0.01
89 1 0.00
91 1 0.00
92 456 0.85
95 37 0.07
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (92 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAA
GGCCAGCTATATTGGACTTAAAGGTGC
Found at i:589522 original size:135 final size:131
Alignment explanation
Indices: 589280--589919 Score: 775
Period size: 135 Copynumber: 4.7 Consensus size: 131
589270 GATGGAAAAT
* * *
589280 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTAATTCAAGG
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGG
*
589345 CCAG-GTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC
66 CCAGCG-ACATTGGACTT----AAGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
589409 TTAAAG
126 TTAAAG
* * *
589415 GTGCCAATGTGCTAATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTACCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT----A--AAGGTGCCAATGTGCTGAT
* * * *
589480 TCAAGGCCAGCGATATTGGACTT-A-AAGGTGCCAATGTGCTGATTCAAGGCCAACTATATTGGA
60 TCAAGGCCAGCGACATTGGACTTAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGA
589543 CTTAAAGAAGAAG
125 CTT-----A-AAG
* * *
589556 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGG
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGG
* *
589621 CCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTTGACT
66 CCAGCGACATTGGACTT--A-A-GAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACT
589686 TAAAG
127 TAAAG
589691 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGG
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGG
* *
589756 CCAACTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACT
66 CCAGCGACATTGGACTT----AAGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACT
589821 TAAAG
127 TAAAG
*
589826 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAAGTGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT-AA-A-G---GTGCCAATGTGCTGAT
* * *
589891 TCAAGGCCAGCAATATTGGGCTT-AGAAGG
60 TCAAGGCCAGCGACATTGGACTTAAGAAGG
589920 GTTGCCATCG
Statistics
Matches: 446, Mismatches: 32, Indels: 53
0.84 0.06 0.10
Matches are distributed among these distances:
135 280 0.63
136 11 0.02
137 4 0.01
138 1 0.00
139 2 0.00
140 1 0.00
141 146 0.33
142 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (131 bp):
GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGG
CCAGCGACATTGGACTTAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA
G
Found at i:589712 original size:21 final size:21
Alignment explanation
Indices: 589688--589755 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
589678 ATTTGACTTA
589688 AAGGTGCCAATGTGCTGATTC
1 AAGGTGCCAATGTGCTGATTC
* * *
589709 AAGGCCAGCTACAT-TG--GACTTA
1 AAGG--TGCCA-ATGTGCTGA-TTC
589731 AAGGTGCCAATGTGCTGATTC
1 AAGGTGCCAATGTGCTGATTC
589752 AAGG
1 AAGG
589756 CCAACTACAT
Statistics
Matches: 34, Mismatches: 6, Indels: 14
0.63 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 12 0.35
22 8 0.24
23 5 0.15
24 2 0.06
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (21 bp):
AAGGTGCCAATGTGCTGATTC
Found at i:589958 original size:33 final size:32
Alignment explanation
Indices: 589914--590890 Score: 1127
Period size: 33 Copynumber: 30.0 Consensus size: 32
589904 TATTGGGCTT
*
589914 AGAAGGGTTGCCATCGACTTGTGTGGGCTTTAA
1 AGAA-GGTTGCCACCGACTTGTGTGGGCTTTAA
* *
589947 AGAATGGTTGCCACCAACTTGTGTGGGCTTTAG
1 AGAA-GGTTGCCACCGACTTGTGTGGGCTTTAA
* *
589980 AGAGGGTTGCCACCGACTTGTGTGGGCTTT-G
1 AGAAGGTTGCCACCGACTTGTGTGGGCTTTAA
* *
590011 AGAAGGGTTGCCACCGACTTGTG-GGGCTGTAG
1 AGAA-GGTTGCCACCGACTTGTGTGGGCTTTAA
* * *
590043 AG-GGGATTCCCACCAACTTGTGTGGGCTTTAGA
1 AGAAGG-TTGCCACCGACTTGTGTGGGCTTTA-A
*
590076 AGAAGGTTGCCACCGACTTGTGTGGGCTTTGGA
1 AGAAGGTTGCCACCGACTTGTGTGGGCTTT-AA
*
590109 AGAAGGTTGCCACCGACTTGTGTGGGCTTT-G
1 AGAAGGTTGCCACCGACTTGTGTGGGCTTTAA
*
590140 GGAAGGGTTGCCACCGACTTGTGTGGGCTTTAA
1 AGAA-GGTTGCCACCGACTTGTGTGGGCTTTAA
* *
590173 AG-GGGATTGCCACCAACTTGTGTGGGCTTTAGA
1 AGAAGG-TTGCCACCGACTTGTGTGGGCTTTA-A
590206 AGAAGGTTGCCACCGACTTGTGTGGGCTTTGGAA
1 AGAAGGTTGCCACCGACTTGTGTGGGCTTT--AA
* * *
590240 A-AAGGTTGCCACCAACTTGTAT-GGCTTTAG
1 AGAAGGTTGCCACCGACTTGTGTGGGCTTTAA
*
590270 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAA-GGTTGCCACCGACTTGTGTGGGCTTTAA
590303 AG-AGGATTGCCACCGACTTGTGTGGGCTTTAGA
1 AGAAGG-TTGCCACCGACTTGTGTGGGCTTTA-A
* *
590336 AGAAGGTTGCCACCGACTTATGTGGGCTTTAG
1 AGAAGGTTGCCACCGACTTGTGTGGGCTTTAA
*
590368 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAA-GGTTGCCACCGACTTGTGTGGGCTTTAA
* *
590401 AG-GGGATTGCCACCAACTTGTGTGGGCTTTAGA
1 AGAAGG-TTGCCACCGACTTGTGTGGGCTTTA-A
*
590434 AGAAGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGTTGCCACCGACTTGTGTGGGCTTTAA
* * * *
590466 AG-GGGATTGCCACCAACTTATGTGGGCTTTAGT
1 AGAAGG-TTGCCACCGACTTGTGTGGGCTTTA-A
590499 AGAAGGTTGCCACCGACTTGTGTGGGCTTTGGAA
1 AGAAGGTTGCCACCGACTTGTGTGGGCTTT--AA
* *
590533 A-AAGGTTGCCACCAACTTGTGTGGGCTTTAG
1 AGAAGGTTGCCACCGACTTGTGTGGGCTTTAA
590564 AGAAGGATTGCCACCGACTTGTGTGGGCTTTAGA
1 AGAAGG-TTGCCACCGACTTGTGTGGGCTTTA-A
590598 AGAAGGTTGCCACCGACTTGTGTGGGCTTTGGAA
1 AGAAGGTTGCCACCGACTTGTGTGGGCTTT--AA
* * *
590632 A-AAGGTTGCCACCAACTTGTGTGAGCTTTAG
1 AGAAGGTTGCCACCGACTTGTGTGGGCTTTAA
*
590663 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAA-GGTTGCCACCGACTTGTGTGGGCTTTAA
* * *
590696 AG-GGGATTGCCACCAACTTATGTGGGCTTTAGA
1 AGAAGG-TTGCCACCGACTTGTGTGGGCTTTA-A
*
590729 AGAAGGTTGCCATCGACTTGTGTGGGCTTTGGAA
1 AGAAGGTTGCCACCGACTTGTGTGGGCTTT--AA
* *
590763 A-AAGGTTGCCACCAACTTGTGTGGGCTTTAG
1 AGAAGGTTGCCACCGACTTGTGTGGGCTTTAA
* **
590794 AGAAGGGTTGCCACCGACTTGTGTAGGCTTTGG
1 AGAA-GGTTGCCACCGACTTGTGTGGGCTTTAA
** *
590827 AGGGGGTTGCCACCAACTTGTGTGGGCTTTAGA
1 AGAAGGTTGCCACCGACTTGTGTGGGCTTTA-A
* *
590860 AAAAGGTTTCCACCGACTTGTGTGGGCTTTA
1 AGAAGGTTGCCACCGACTTGTGTGGGCTTTA
590891 GAAGGGAAAA
Statistics
Matches: 818, Mismatches: 82, Indels: 88
0.83 0.08 0.09
Matches are distributed among these distances:
30 4 0.00
31 45 0.06
32 260 0.32
33 479 0.59
34 26 0.03
35 4 0.00
ACGTcount: A:0.20, C:0.18, G:0.33, T:0.28
Consensus pattern (32 bp):
AGAAGGTTGCCACCGACTTGTGTGGGCTTTAA
Found at i:589997 original size:65 final size:65
Alignment explanation
Indices: 589907--590896 Score: 1187
Period size: 65 Copynumber: 15.2 Consensus size: 65
589897 CCAGCAATAT
* * *
589907 TGGGC-TTAGA-AGGGTTGCCATCGACTTGTGTGGGCTTTAAAGAATGGTTGCCACCAACTTGTG
1 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTGTGGGCTTTAAAGAAGGGTTGCCACCGACTTGTG
*
589970 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTGTGGGCTTT-GAGAAGGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTGTGGGCTTTAAAGAAGGGTTGCCACCGACTTGTG
* * *
590034 -GGGCTGTAGAG-GGGATTCCCACCAACTTGTGTGGGCTTTAGAAGAA-GGTTGCCACCGACTTG
1 TGGGCTTTAGAGAGGG-TTGCCACCGACTTGTGTGGGCTTTA-AAGAAGGGTTGCCACCGACTTG
590096 TG
64 TG
* * **
590098 TGGGCTTTGGAAGAAGGTTGCCACCGACTTGTGTGGGCTTT-GGGAAGGGTTGCCACCGACTTGT
1 TGGGCTTTAG-AGAGGGTTGCCACCGACTTGTGTGGGCTTTAAAGAAGGGTTGCCACCGACTTGT
590162 G
65 G
* *
590163 TGGGCTTTAAAG-GGGATTGCCACCAACTTGTGTGGGCTTTAGAAGAA-GGTTGCCACCGACTTG
1 TGGGCTTTAGAGAGGG-TTGCCACCGACTTGTGTGGGCTTTA-AAGAAGGGTTGCCACCGACTTG
590226 TG
64 TG
* * * * * *
590228 TGGGCTTTGGAAAAAGGTTGCCACCAACTTGTAT-GGCTTTAGAGAAGGGTTGCCACCGACTTGT
1 TGGGCTTTAG-AGAGGGTTGCCACCGACTTGTGTGGGCTTTAAAGAAGGGTTGCCACCGACTTGT
590292 G
65 G
* *
590293 TGGGCTTTAGAGAGGATTGCCACCGACTTGTGTGGGCTTTAGAAGAA-GGTTGCCACCGACTTAT
1 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTGTGGGCTTTA-AAGAAGGGTTGCCACCGACTTGT
590357 G
65 G
* *
590358 TGGGCTTTAGAGAAGGGTTGCCACCGACTTGTGTGGGCTTT--AGAGGGGATTGCCACCAACTTG
1 TGGGCTTTAGAG-AGGGTTGCCACCGACTTGTGTGGGCTTTAAAGAAGGG-TTGCCACCGACTTG
590421 TG
64 TG
* * * *
590423 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTGTGGGCTTT--AGAGGGGATTGCCACCAACTTA
1 TGGGCTTTAG-AGAGGGTTGCCACCGACTTGTGTGGGCTTTAAAGAAGGG-TTGCCACCGACTTG
590486 TG
64 TG
* *
590488 TGGGCTTTAGTAGAAGGTTGCCACCGACTTGTGTGGGCTTTGGAAA-AA-GGTTGCCACCAACTT
1 TGGGCTTTAG-AGAGGGTTGCCACCGACTTGTGTGGGCTTT--AAAGAAGGGTTGCCACCGACTT
590551 GTG
63 GTG
*
590554 TGGGCTTTAGAGAAGGATTGCCACCGACTTGTGTGGGCTTTAGAAGAA-GGTTGCCACCGACTTG
1 TGGGCTTTAGAG-AGGGTTGCCACCGACTTGTGTGGGCTTTA-AAGAAGGGTTGCCACCGACTTG
590618 TG
64 TG
* * * * * *
590620 TGGGCTTTGGAAAAAGGTTGCCACCAACTTGTGTGAGCTTTAGAGAAGGGTTGCCACCGACTTGT
1 TGGGCTTTAG-AGAGGGTTGCCACCGACTTGTGTGGGCTTTAAAGAAGGGTTGCCACCGACTTGT
590685 G
65 G
* * *
590686 TGGGCTTTAGAG-GGGATTGCCACCAACTTATGTGGGCTTTAGAAGAA-GGTTGCCATCGACTTG
1 TGGGCTTTAGAGAGGG-TTGCCACCGACTTGTGTGGGCTTTA-AAGAAGGGTTGCCACCGACTTG
590749 TG
64 TG
* * * * *
590751 TGGGCTTTGGAAAAAGGTTGCCACCAACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCGACTTGT
1 TGGGCTTTAG-AGAGGGTTGCCACCGACTTGTGTGGGCTTTAAAGAAGGGTTGCCACCGACTTGT
590816 G
65 G
* * * * * *
590817 TAGGCTTTGGAGGGGGTTGCCACCAACTTGTGTGGGCTTTAGAA-AAAGGTTTCCACCGACTTGT
1 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTGTGGGCTTTA-AAGAAGGGTTGCCACCGACTTGT
590881 G
65 G
590882 TGGGCTTTAGA-AGGG
1 TGGGCTTTAGAGAGGG
590897 AAAAAGAGTG
Statistics
Matches: 814, Mismatches: 77, Indels: 71
0.85 0.08 0.07
Matches are distributed among these distances:
62 3 0.00
63 42 0.05
64 102 0.13
65 392 0.48
66 264 0.32
67 9 0.01
68 1 0.00
69 1 0.00
ACGTcount: A:0.20, C:0.18, G:0.34, T:0.28
Consensus pattern (65 bp):
TGGGCTTTAGAGAGGGTTGCCACCGACTTGTGTGGGCTTTAAAGAAGGGTTGCCACCGACTTGTG
Found at i:590166 original size:98 final size:95
Alignment explanation
Indices: 589907--590892 Score: 1209
Period size: 98 Copynumber: 10.1 Consensus size: 95
589897 CCAGCAATAT
* * *
589907 TGGGC-TTAGA-AGGGTTGCCATCGACTTGTGTGGGCTTTAAAGAATGGTTGCCACCAACTTGTG
1 TGGGCTTTAGAGAAGGTTGCCACCGACTTGTGTGGGCTTT--AGAAGGGTTGCCACCAACTTGTG
*
589970 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTG
64 TGGGCTTTAGAGAAGGTTGCCACCGACTTGTG
* * *
590002 TGGGCTTT-GAGAAGGGTTGCCACCGACTTGTG-GGGCTGTAGAGGGGATTCCCACCAACTTGTG
1 TGGGCTTTAGAGAA-GGTTGCCACCGACTTGTGTGGGCTTTAGAAGGG-TTGCCACCAACTTGTG
590065 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTG
64 TGGGCTTTAG-AGAAGGTTGCCACCGACTTGTG
* * *
590098 TGGGCTTTGGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTGGGAAGGGTTGCCACCGACTTGTG
1 TGGGCTTTAG-AGAAGGTTGCCACCGACTTGTGTGGGCTTT-AGAAGGGTTGCCACCAACTTGTG
* * *
590163 TGGGCTTTAAAG-GGGATTGCCACCAACTTGTG
64 TGGGCTTTAGAGAAGG-TTGCCACCGACTTGTG
* *
590195 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTGGAAAAAGGTTGCCACCAACTTGT
1 TGGGCTTTAG-AGAAGGTTGCCACCGACTTGTGTGGGCTTT--AGAAGGGTTGCCACCAACTTGT
*
590260 AT-GGCTTTAGAGAAGGGTTGCCACCGACTTGTG
63 GTGGGCTTTAGAGAA-GGTTGCCACCGACTTGTG
* *
590293 TGGGCTTTAGAG-AGGATTGCCACCGACTTGTGTGGGCTTTAGAAGAAGGTTGCCACCGACTTAT
1 TGGGCTTTAGAGAAGG-TTGCCACCGACTTGTGTGGGCTTTAGAAG--GGTTGCCACCAACTTGT
590357 GTGGGCTTTAGAGAAGGGTTGCCACCGACTTGTG
63 GTGGGCTTTAGAGAA-GGTTGCCACCGACTTGTG
* * *
590391 TGGGCTTTAGAG-GGGATTGCCACCAACTTGTGTGGGCTTTAGAAGAAGGTTGCCACCGACTTGT
1 TGGGCTTTAGAGAAGG-TTGCCACCGACTTGTGTGGGCTTTAGAAG--GGTTGCCACCAACTTGT
* * *
590455 GTGGGCTTTAGAG-GGGATTGCCACCAACTTATG
63 GTGGGCTTTAGAGAAGG-TTGCCACCGACTTGTG
* *
590488 TGGGCTTTAGTAGAAGGTTGCCACCGACTTGTGTGGGCTTTGGAAAAAGGTTGCCACCAACTTGT
1 TGGGCTTTAG-AGAAGGTTGCCACCGACTTGTGTGGGCTTT--AGAAGGGTTGCCACCAACTTGT
590553 GTGGGCTTTAGAGAAGGATTGCCACCGACTTGTG
63 GTGGGCTTTAGAGAAGG-TTGCCACCGACTTGTG
* *
590587 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTGGAAAAAGGTTGCCACCAACTTGT
1 TGGGCTTTAG-AGAAGGTTGCCACCGACTTGTGTGGGCTTT--AGAAGGGTTGCCACCAACTTGT
*
590652 GTGAGCTTTAGAGAAGGGTTGCCACCGACTTGTG
63 GTGGGCTTTAGAGAA-GGTTGCCACCGACTTGTG
* * * * *
590686 TGGGCTTTAGAG-GGGATTGCCACCAACTTATGTGGGCTTTAGAAGAAGGTTGCCATCGACTTGT
1 TGGGCTTTAGAGAAGG-TTGCCACCGACTTGTGTGGGCTTTAGAAG--GGTTGCCACCAACTTGT
* * *
590750 GTGGGCTTTGGAAAAAGGTTGCCACCAACTTGTG
63 GTGGGCTTTAG-AGAAGGTTGCCACCGACTTGTG
* * *
590784 TGGGCTTTAGAGAAGGGTTGCCACCGACTTGTGTAGGCTTTGGAGGGGGTTGCCACCAACTTGTG
1 TGGGCTTTAGAGAA-GGTTGCCACCGACTTGTGTGGGCTTTAGA-AGGGTTGCCACCAACTTGTG
* *
590849 TGGGCTTTAGAAAAAGGTTTCCACCGACTTGTG
64 TGGGCTTTAG-AGAAGGTTGCCACCGACTTGTG
590882 TGGGCTTTAGA
1 TGGGCTTTAGA
590893 AGGGAAAAAG
Statistics
Matches: 793, Mismatches: 67, Indels: 59
0.86 0.07 0.06
Matches are distributed among these distances:
94 5 0.01
95 35 0.04
96 48 0.06
97 170 0.21
98 371 0.47
99 156 0.20
100 8 0.01
ACGTcount: A:0.20, C:0.18, G:0.33, T:0.28
Consensus pattern (95 bp):
TGGGCTTTAGAGAAGGTTGCCACCGACTTGTGTGGGCTTTAGAAGGGTTGCCACCAACTTGTGTG
GGCTTTAGAGAAGGTTGCCACCGACTTGTG
Found at i:590972 original size:33 final size:34
Alignment explanation
Indices: 590896--591326 Score: 461
Period size: 34 Copynumber: 12.9 Consensus size: 34
590886 CTTTAGAAGG
*
590896 GAAAAAGAGTGCCACGAAGTTGT-GAGCTTTAAAAA
1 GAAAAAG-GTGCCACGGAGTTGTGGA-CTTTAAAAA
* *
590931 G---AAGGTGCCACGGAGTCGTGGAC-TTAAAAG
1 GAAAAAGGTGCCACGGAGTTGTGGACTTTAAAAA
* * * *
590961 GTATAAGGTGCCACGGGGTTGTGGACTTTAAAAGG
1 GAAAAAGGTGCCACGGAGTTGTGGACTTTAAAA-A
* *
590996 GAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAA
1 GAAAAAG-GTGCCACGGAGTTGTGGACTTTAAAAA
** *
591031 G---AAGGTGCCACAAAGTTGTGGAC-TTAAAAG
1 GAAAAAGGTGCCACGGAGTTGTGGACTTTAAAAA
* *
591061 GAACAAGGTGCCACGGGGTTGTGGACTTTAAAAA
1 GAAAAAGGTGCCACGGAGTTGTGGACTTTAAAAA
* * *
591095 G-AAAAGGTGCCACGGAGTCGTGGGCTTTGAAAA
1 GAAAAAGGTGCCACGGAGTTGTGGACTTTAAAAA
* *
591128 GAAAAAGGTGCCATGGAGTTGTGGGCTTTAAAAA
1 GAAAAAGGTGCCACGGAGTTGTGGACTTTAAAAA
* * *
591162 GAAAAATGTGCGACGGAGTTGTGGACTTTAAAAGG
1 GAAAAAGGTGCCACGGAGTTGTGGACTTTAAAA-A
* *
591197 GAAAAAGATGCCACAGAGTTGTGGAC-TTAAAAA
1 GAAAAAGGTGCCACGGAGTTGTGGACTTTAAAAA
* ** *
591230 GAAAAAGATGCCACAAAGTTGTGGGCTTTAAAAA
1 GAAAAAGGTGCCACGGAGTTGTGGACTTTAAAAA
*
591264 GAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAA
1 GAAAAAGGTGCCACGGAGTTGTGGACTTTAAAAA
* *
591298 GAAAAAGGTGCCACGGAGTTATGGGCTTT
1 GAAAAAGGTGCCACGGAGTTGTGGACTTT
591327 GAAGAAAAGA
Statistics
Matches: 338, Mismatches: 44, Indels: 29
0.82 0.11 0.07
Matches are distributed among these distances:
30 13 0.04
31 30 0.09
32 8 0.02
33 91 0.27
34 143 0.42
35 30 0.09
36 23 0.07
ACGTcount: A:0.35, C:0.12, G:0.32, T:0.21
Consensus pattern (34 bp):
GAAAAAGGTGCCACGGAGTTGTGGACTTTAAAAA
Found at i:590997 original size:100 final size:101
Alignment explanation
Indices: 590880--591326 Score: 498
Period size: 100 Copynumber: 4.5 Consensus size: 101
590870 CACCGACTTG
* * * * **
590880 TGTGGGCTTTAGAAGGGAAAAAGAGTGCCACGAAGTTGTGAGCTTTAAAAAGAAGGTGCCACGGA
1 TGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAGGTGCCACAAA
* * * * *
590945 GTCGTGGAC-TTAAAAGGTATAAGGTGCCACGGGGT
66 GTTGTGGACTTTAAAAAGAAAAAGGTGCCACGGAGT
*
590980 TGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACAAA
1 TGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAGGTGCCACAAA
* * *
591045 GTTGTGGAC-TTAAAAGGAACAAGGTGCCACGGGGT
66 GTTGTGGACTTTAAAAAGAAAAAGGTGCCACGGAGT
* * * *
591080 TGTGGACTTTAAAA-AG-AAAAG-GTGCCACGGAGTCGTGGGCTTTGAAAAGAAAAAGGTGCCAT
1 TGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT--AAA-AAGAAGGTGCCAC
** * * *
591142 GGAGTTGTGGGCTTTAAAAAGAAAAATGTGCGACGGAGT
63 AAAGTTGTGGACTTTAAAAAGAAAAAGGTGCCACGGAGT
* * *
591181 TGTGGACTTTAAAAGGGAAAAAGA-TGCCACAGAGTTGTGGAC-TTAAAAAGAAAAAGATGCCAC
1 TGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAG---AAGGTGCCAC
*
591244 AAAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGT
63 AAAGTTGTGGACTTTAAAAAGAAAAAGGTGCCACGGAGT
* * *
591283 TGTGGGCTTTAAAA-AGAAAAAG-GTGCCACGGAGTTATGGGCTTT
1 TGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
591327 GAAGAAAAGA
Statistics
Matches: 296, Mismatches: 39, Indels: 22
0.83 0.11 0.06
Matches are distributed among these distances:
97 21 0.07
98 5 0.02
99 5 0.02
100 127 0.43
101 57 0.19
102 61 0.21
103 20 0.07
ACGTcount: A:0.34, C:0.12, G:0.32, T:0.21
Consensus pattern (101 bp):
TGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAGGTGCCACAAA
GTTGTGGACTTTAAAAAGAAAAAGGTGCCACGGAGT
Found at i:591358 original size:31 final size:31
Alignment explanation
Indices: 591300--591420 Score: 118
Period size: 31 Copynumber: 3.9 Consensus size: 31
591290 TTTAAAAAGA
* * * *
591300 AAAAGGTGCCACGGAGTTATGGGCTTTGAAG
1 AAAAGATGCCACTGAGTCATGGACTTTGAAG
*
591331 AAAAGATGTCACTGAGTCATGGACTTTGAA-
1 AAAAGATGCCACTGAGTCATGGACTTTGAAG
* ** *
591361 AAGAGATTGCCACTGAGTTGTGGACTTTGGAG
1 AAAAGA-TGCCACTGAGTCATGGACTTTGAAG
* * *
591393 AAAAAATGCCATTGAGTCGTGGACTTTG
1 AAAAGATGCCACTGAGTCATGGACTTTG
591421 GGACAAAATG
Statistics
Matches: 74, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
30 5 0.07
31 65 0.88
32 4 0.05
ACGTcount: A:0.31, C:0.13, G:0.30, T:0.26
Consensus pattern (31 bp):
AAAAGATGCCACTGAGTCATGGACTTTGAAG
Found at i:591421 original size:31 final size:31
Alignment explanation
Indices: 591323--591478 Score: 149
Period size: 30 Copynumber: 5.1 Consensus size: 31
591313 GAGTTATGGG
* * * *
591323 CTTTGAAGAAAAGATGTCACTGAGTCATGGA
1 CTTTGGAGAAAAAATGCCACTGAGTCGTGGA
* *
591354 CTTT-GA-AAAGAGATTGCCACTGAGTTGTGGA
1 CTTTGGAGAAA-A-AATGCCACTGAGTCGTGGA
*
591385 CTTTGGAGAAAAAATGCCATTGAGTCGTGGA
1 CTTTGGAGAAAAAATGCCACTGAGTCGTGGA
* * * *
591416 CTTTGG-GACAAAATGGCACTAAGTCGTGGG
1 CTTTGGAGAAAAAATGCCACTGAGTCGTGGA
* *
591446 CTTTGG-GACAAAATGCCACTGAGTTGTGGA
1 CTTTGGAGAAAAAATGCCACTGAGTCGTGGA
591476 CTT
1 CTT
591479 AAAAGTCAAC
Statistics
Matches: 103, Mismatches: 18, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
29 3 0.03
30 50 0.49
31 44 0.43
32 3 0.03
33 3 0.03
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (31 bp):
CTTTGGAGAAAAAATGCCACTGAGTCGTGGA
Found at i:591441 original size:30 final size:30
Alignment explanation
Indices: 591368--591478 Score: 150
Period size: 30 Copynumber: 3.7 Consensus size: 30
591358 GAAAAGAGAT
* *
591368 TGCCACTGAGTTGTGGACTTTGGAGAAAAAA
1 TGCCACTGAGTCGTGGACTTTGG-GACAAAA
*
591399 TGCCATTGAGTCGTGGACTTTGGGACAAAA
1 TGCCACTGAGTCGTGGACTTTGGGACAAAA
* * *
591429 TGGCACTAAGTCGTGGGCTTTGGGACAAAA
1 TGCCACTGAGTCGTGGACTTTGGGACAAAA
*
591459 TGCCACTGAGTTGTGGACTT
1 TGCCACTGAGTCGTGGACTT
591479 AAAAGTCAAC
Statistics
Matches: 69, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
30 48 0.70
31 21 0.30
ACGTcount: A:0.26, C:0.16, G:0.31, T:0.27
Consensus pattern (30 bp):
TGCCACTGAGTCGTGGACTTTGGGACAAAA
Found at i:592489 original size:21 final size:20
Alignment explanation
Indices: 592464--592502 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
592454 CTCACCGAGA
*
592464 TTTTCTGTTTTGTTTTTTTCT
1 TTTTCTCTTTT-TTTTTTTCT
592485 TTTTCTCTTTTTTTTTTT
1 TTTTCTCTTTTTTTTTTT
592503 GTGTTTGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.00, C:0.10, G:0.05, T:0.85
Consensus pattern (20 bp):
TTTTCTCTTTTTTTTTTTCT
Found at i:593384 original size:52 final size:53
Alignment explanation
Indices: 593276--593395 Score: 129
Period size: 52 Copynumber: 2.3 Consensus size: 53
593266 ACGACACTAG
* * * * *
593276 ACTTAAAGATAA-GAAGAGTGCCAATGTGCTGATTCACGACTGGCGACATTGG
1 ACTTAAAGATAACAAAGAGTGCCAATGTGCTGATTCAAGACTAGCGACATCGA
* * *
593328 ACTTAAACATAACAAAG-GTGCCAATGT-CTTGATTCAAGGCTAGCGATATCGA
1 ACTTAAAGATAACAAAGAGTGCCAATGTGC-TGATTCAAGACTAGCGACATCGA
*
593380 ACTTAAAGATGACAAA
1 ACTTAAAGATAACAAA
593396 AGTAGTGTTT
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
51 1 0.02
52 52 0.93
53 3 0.05
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (53 bp):
ACTTAAAGATAACAAAGAGTGCCAATGTGCTGATTCAAGACTAGCGACATCGA
Found at i:593551 original size:63 final size:65
Alignment explanation
Indices: 593418--594867 Score: 525
Period size: 63 Copynumber: 22.8 Consensus size: 65
593408 AAAAGGGTTA
* * * * ** * *
593418 CCACCGACTTGCGTGGGCTTTTAAAAGGGCTACCGTCGACTTGTGTGGGTTTTTGAAAAAA-GAT
1 CCACCGACTTGTGTGGGC-TTCAAAAGGGTTGCCACCAACTTGTGTGGGCTTTTGAAAAAAGGAT
593482 G
65 G
* * *
593483 CCACCGACTTATGTGGGCTTCAAAAGGGTTGCCATCGACTTGT-TGGGCTTTTGAAAAAA-GATG
1 CCACCGACTTGTGTGGGCTTCAAAAGGGTTGCCACCAACTTGTGTGGGCTTTTGAAAAAAGGATG
* * * * * * ** *
593546 CCACCGACTTGCGTTGGCTTTAAAAAGGTTGCCACCAACTTGTATAGGCTTTAAAAAAAAGGTTG
1 CCACCGACTTGTGTGGGCTTCAAAAGGGTTGCCACCAACTTGTGTGGGCTTTTGAAAAAAGGATG
* * * *
593611 CCACCAACTTGTGTGGGCTT-AAAAGGGGTACCACCAACTTATGTGGGC-TTTGAAAAAAGGATG
1 CCACCGACTTGTGTGGGCTTCAAAAGGGTTGCCACCAACTTGTGTGGGCTTTTGAAAAAAGGATG
* * * ** * ** * *
593674 CCACCAACTTGTGTGGGCTTCGAGAAGGGTTGCTACTGACTTTTGTGGGC--TTG-GTAAGGGTT
1 CCACCGACTTGTGTGGGCTTC-AAAAGGGTTGCCACCAACTTGTGTGGGCTTTTGAAAAAAGGAT
593736 G
65 G
*** * * ** * * * *
593737 CCAATAACTTGTGTGGGCTTTGATAAGGGTTGCCAATAACTTGTGTGGGC-TTT-AGAGAGGGTT
1 CCACCGACTTGTGTGGGC-TTCAAAAGGGTTGCCACCAACTTGTGTGGGCTTTTGAAAAAAGGAT
593800 G
65 G
* * * * * * * *
593801 CCACC-AGCTTGTGTGGGCTTTGAGAAGGGGTACCACTAGCTTGTGTGGGC-TTTG--AAAGGGG
1 CCACCGA-CTTGTGTGGGC-TTCAAAAGGGTTGCCACCAACTTGTGTGGGCTTTTGAAAAAAGGA
593862 TG
64 TG
* * * * * * * * *
593864 CCCCCGACTTCTATAGGCCTTGAAAAAAGGATGCCACCAACTTGTGTGGG-TTTAGAAAAAAAGA
1 CCACCGACTTGTGT-GGGCTT-CAAAAGGGTTGCCACCAACTTGTGTGGGCTTTTGAAAAAAGGA
593928 TG
64 TG
** * ** * * * * * *
593930 CCACTAACTTGTGTGGGCTTTGAAGCGGGTTGCCATCGACTTGTGTGGGC-TTT-AGAGAGGGTT
1 CCACCGACTTGTGTGGGC-TTCAAAAGGGTTGCCACCAACTTGTGTGGGCTTTTGAAAAAAGGAT
593993 G
65 G
** * ** * * * *
593994 CCACTAACTTGTGTAGGCTTTGAGAGGGTTGCCACCAACTTGTGTGGGC-TTTG-AGAAGGGTTG
1 CCACCGACTTGTGTGGGCTTCAAAAGGGTTGCCACCAACTTGTGTGGGCTTTTGAAAAAAGGATG
* * * ** *** *
594057 CCACC-AGTT-TGT--G--T-----GGGGTGACACTGACTTGTGTGGGCTTTT--AAGGGGGTTG
1 CCACCGACTTGTGTGGGCTTCAAAAGGGTTGCCACCAACTTGTGTGGGCTTTTGAAAAAAGGATG
*** * * * * * *
594109 CCTTTGACTTGTGTGGGCTTTAAAGATGGTCGCCACCAACTTGTGTAGGC-TTT--AAAAGGGGT
1 CCACCGACTTGTGTGGGCTTCAAA-AGGGTTGCCACCAACTTGTGTGGGCTTTTGAAAAAAGGAT
594171 G
65 G
* * * * * * * * * *
594172 CCACCAACTTATGTGGGCTTTGAAAAAAAAGGATGCCAACAACTTATGTTGGC-TTTAAAAAAAA
1 CCACCGACTTGTGTGGGC-TT---CAAAAGGGTTGCCACCAACTTGTGTGGGCTTTTGAAAAAAG
594236 GATG
62 GATG
* * * * * * * * * *
594240 CCACCAACTTGTATGAGCTTTGAAAGGGGTTGCCACTAACTTGTGTGGGC-TTT-AGAGAGGGTT
1 CCACCGACTTGTGTGGGC-TTCAAAAGGGTTGCCACCAACTTGTGTGGGCTTTTGAAAAAAGGAT
*
594303 A
65 G
* * * **
594304 CCACCAACTTGTGTGGGCTTTAAAAGGGGTGCCACTGACTTGTGTGGGC-TTTGAAAAAAGGATG
1 CCACCGACTTGTGTGGGCTTCAAAAGGGTTGCCACCAACTTGTGTGGGCTTTTGAAAAAAGGATG
** * * * * * * *** *
594368 CCACTAACTTCTGTTGGCTTTGAAAAGGATTGCCACCGACTTGTGTGAGC-TTTG-AAGGGGGTT
1 CCACCGACTTGTGTGGGC-TTCAAAAGGGTTGCCACCAACTTGTGTGGGCTTTTGAAAAAAGGAT
594431 G
65 G
* * * * * *
594432 CCACCGACTTGTATGGGCTTTAGAAAGGGTTGCCACCGACTTGTGTAGGC-TTT--AAAAGGGGT
1 CCACCGACTTGTGTGGGCTTCA-AAAGGGTTGCCACCAACTTGTGTGGGCTTTTGAAAAAAGGAT
594494 G
65 G
** * * * * ** * ***
594495 CCATTGACTTATATAGGCTTTGAAAAAAATGATGCCACCAACTTGTGTGGGC-TTT-AAAGGGGG
1 CCACCGACTTGTGTGGGC-TT--CAAAAGGGTTGCCACCAACTTGTGTGGGCTTTTGAAAAAAGG
*
594558 TTG
63 ATG
* * * * * * *
594561 CCATCGACTTGTGTGGGCTTTAGAGAA-GGTTCCCACTAACTTGTGTGGGC-TTTG--AGAGGGT
1 CCACCGACTTGTGTGGGCTTCA-A-AAGGGTTGCCACCAACTTGTGTGGGCTTTTGAAAAAAGGA
594622 TG
64 TG
* * * * *
594624 CCACCGACTTGTGTGGGCTTTAAAAAGGGTTGCCACTAGCTTGTGTGGGC--TT--AAAATGGGT
1 CCACCGACTTGTGTGGGC-TTCAAAAGGGTTGCCACCAACTTGTGTGGGCTTTTGAAAAAAGGAT
594685 G
65 G
* * * * *** **
594686 TCATCGACTTGTGTGGGCTTTAGAGAGGGTTGCCATTGACTTGTGTGGGC-TTT-AAAAGTGG-T
1 CCACCGACTTGTGTGGGCTTCA-AAAGGGTTGCCACCAACTTGTGTGGGCTTTTGAAAAAAGGAT
594748 G
65 G
* ** * * * **
594749 CCACCGACTTGTGTGGGCTTTGGAAAAAAAGATGCCACCAACTTATATGGGC-TTTG-AAGGAGG
1 CCACCGACTTGTGTGGGC-TT--CAAAAGGGTTGCCACCAACTTGTGTGGGCTTTTGAAAAAAGG
*
594812 TTG
63 ATG
* * * *
594815 CCACCGACTTGTGTGGGCTTTAGAGAGGGTTGCCATCAACTTATGTGGGCTTT
1 CCACCGACTTGTGTGGGCTTCA-AAAGGGTTGCCACCAACTTGTGTGGGCTTT
594868 AAAAAGGGTA
Statistics
Matches: 1073, Mismatches: 252, Indels: 120
0.74 0.17 0.08
Matches are distributed among these distances:
52 29 0.03
53 6 0.01
54 3 0.00
56 1 0.00
57 1 0.00
58 1 0.00
59 1 0.00
61 6 0.01
62 52 0.05
63 337 0.31
64 330 0.31
65 196 0.18
66 82 0.08
67 3 0.00
68 25 0.02
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.29
Consensus pattern (65 bp):
CCACCGACTTGTGTGGGCTTCAAAAGGGTTGCCACCAACTTGTGTGGGCTTTTGAAAAAAGGATG
Found at i:594060 original size:32 final size:32
Alignment explanation
Indices: 593404--594073 Score: 471
Period size: 32 Copynumber: 21.0 Consensus size: 32
593394 AAAGTAGTGT
* * *
593404 TTTGAAAAGGGTTACCACCGACTTGCGTGGGC
1 TTTGAAAAGGGTTGCCACCAACTTGTGTGGGC
* * * ** * *
593436 TTTTAAAAGGGCTACCGTCGACTTGTGTGGGTT
1 TTTGAAAAGGGTTGCCACCAACTTGTGTGGG-C
** * * *
593469 TTTGAAAAAAGATGCCACCGACTTATGTGGGC
1 TTTGAAAAGGGTTGCCACCAACTTGTGTGGGC
* * *
593501 -TTCAAAAGGGTTGCCATCGACTTGT-TGGGC
1 TTTGAAAAGGGTTGCCACCAACTTGTGTGGGC
** * * * *
593531 TTTTGAAAAAAGATGCCACCGACTTGCGTTGGC
1 -TTTGAAAAGGGTTGCCACCAACTTGTGTGGGC
* * *
593564 TTT-AAAAAGGTTGCCACCAACTTGTATAGGC
1 TTTGAAAAGGGTTGCCACCAACTTGTGTGGGC
* *
593595 TTTAAAAAAAAGGTTGCCACCAACTTGTGTGGGC
1 TTT--GAAAAGGGTTGCCACCAACTTGTGTGGGC
* * *
593629 -TT-AAAAGGGGTACCACCAACTTATGTGGGC
1 TTTGAAAAGGGTTGCCACCAACTTGTGTGGGC
* *
593659 TTTGAAAAAAGGATGCCACCAACTTGTGTGGGC
1 TTTG-AAAAGGGTTGCCACCAACTTGTGTGGGC
* * * ** *
593692 TTCGAGAAGGGTTGCTACTGACTTTTGTGGGC
1 TTTGAAAAGGGTTGCCACCAACTTGTGTGGGC
** **
593724 -TTGGTAAGGGTTGCCAATAACTTGTGTGGGC
1 TTTGAAAAGGGTTGCCACCAACTTGTGTGGGC
* **
593755 TTTGATAAGGGTTGCCAATAACTTGTGTGGGC
1 TTTGAAAAGGGTTGCCACCAACTTGTGTGGGC
* *
593787 TTT-AGAGAGGGTTGCCACCAGCTTGTGTGGGC
1 TTTGA-AAAGGGTTGCCACCAACTTGTGTGGGC
* * * * *
593819 TTTGAGAAGGGGTACCACTAGCTTGTGTGGGC
1 TTTGAAAAGGGTTGCCACCAACTTGTGTGGGC
* * * * * *
593851 TTTG-AAAGGGGTGCCCCCGACTTCTATAGGC
1 TTTGAAAAGGGTTGCCACCAACTTGTGTGGGC
* * *
593882 CTTGAAAAAAGGATGCCACCAACTTGTGTGGG-
1 TTTG-AAAAGGGTTGCCACCAACTTGTGTGGGC
** * *
593914 TTTAGAAAAAAAGATGCCACTAACTTGTGTGGGC
1 TTT-G-AAAAGGGTTGCCACCAACTTGTGTGGGC
** * *
593948 TTTGAAGCGGGTTGCCATCGACTTGTGTGGGC
1 TTTGAAAAGGGTTGCCACCAACTTGTGTGGGC
* * *
593980 TTT-AGAGAGGGTTGCCACTAACTTGTGTAGGC
1 TTTGA-AAAGGGTTGCCACCAACTTGTGTGGGC
*
594012 TTTG-AGAGGGTTGCCACCAACTTGTGTGGGC
1 TTTGAAAAGGGTTGCCACCAACTTGTGTGGGC
* **
594043 TTTGAGAAGGGTTGCCACCAGTTTGTGTGGG
1 TTTGAAAAGGGTTGCCACCAACTTGTGTGGG
594074 GTGACACTGA
Statistics
Matches: 509, Mismatches: 109, Indels: 40
0.77 0.17 0.06
Matches are distributed among these distances:
30 29 0.06
31 122 0.24
32 225 0.44
33 104 0.20
34 29 0.06
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.29
Consensus pattern (32 bp):
TTTGAAAAGGGTTGCCACCAACTTGTGTGGGC
Done.