Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold17
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: 1562583
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.27
Warning! 255143 characters in sequence are not A, C, G, or T
File 5 of 9
Found at i:798331 original size:42 final size:42
Alignment explanation
Indices: 798272--798366 Score: 172
Period size: 42 Copynumber: 2.3 Consensus size: 42
798262 TGTATCGATA
*
798272 CATCACTATTCATGTATCGATACATCACTGTTCATCACTATT
1 CATCACTGTTCATGTATCGATACATCACTGTTCATCACTATT
*
798314 CATCATTGTTCATGTATCGATACATCACTGTTCATCACTATT
1 CATCACTGTTCATGTATCGATACATCACTGTTCATCACTATT
798356 CATCACTGTTC
1 CATCACTGTTC
798367 GATACATCAC
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.26, C:0.26, G:0.08, T:0.39
Consensus pattern (42 bp):
CATCACTGTTCATGTATCGATACATCACTGTTCATCACTATT
Found at i:798489 original size:20 final size:21
Alignment explanation
Indices: 798443--798489 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
798433 AATTTCAAAT
*
798443 GCGTGTATCGATACATTATGA
1 GCGTGTATCGATACATTAGGA
**
798464 -ATTGTATCGATACATT-GGA
1 GCGTGTATCGATACATTAGGA
798483 GCGTGTA
1 GCGTGTA
798490 AGTGCGGAAA
Statistics
Matches: 20, Mismatches: 5, Indels: 3
0.71 0.18 0.11
Matches are distributed among these distances:
19 2 0.10
20 18 0.90
ACGTcount: A:0.28, C:0.13, G:0.26, T:0.34
Consensus pattern (21 bp):
GCGTGTATCGATACATTAGGA
Found at i:798908 original size:34 final size:35
Alignment explanation
Indices: 798845--798911 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
798835 CTAAGTGATT
798845 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
798881 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
798912 TGTTGTAAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:799283 original size:33 final size:33
Alignment explanation
Indices: 799246--799312 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 33
799236 GTTATAAGCT
*
799246 ATGTATCGATACATT-TCATCATGTATCGATACA
1 ATGTATCGATACATTGT-ACCATGTATCGATACA
*
799279 ATGTATCGATACATTGTACCATGTATTGATACA
1 ATGTATCGATACATTGTACCATGTATCGATACA
799312 A
1 A
799313 ATAGTGATAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 30 0.97
34 1 0.03
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.36
Consensus pattern (33 bp):
ATGTATCGATACATTGTACCATGTATCGATACA
Found at i:799284 original size:13 final size:13
Alignment explanation
Indices: 799266--799296 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
799256 ACATTTCATC
799266 ATGTATCGATACA
1 ATGTATCGATACA
799279 ATGTATCGATACA
1 ATGTATCGATACA
*
799292 TTGTA
1 ATGTA
799297 CCATGTATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:801114 original size:12 final size:11
Alignment explanation
Indices: 801093--801135 Score: 68
Period size: 12 Copynumber: 3.7 Consensus size: 11
801083 TCCTTCATAC
801093 CAAAAAAAAAA
1 CAAAAAAAAAA
801104 CAAACAAAAAAA
1 CAAA-AAAAAAA
801116 CAAAAAAAACAA
1 CAAAAAAAA-AA
801128 CAAAAAAA
1 CAAAAAAA
801136 TAGAAAGAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.30
12 21 0.70
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (11 bp):
CAAAAAAAAAA
Found at i:801122 original size:21 final size:20
Alignment explanation
Indices: 801096--801135 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 20
801086 TTCATACCAA
801096 AAAAAAAACAAACAAAAAAAC
1 AAAAAAAAC-AACAAAAAAAC
801117 AAAAAAAACAACAAAAAAA
1 AAAAAAAACAACAAAAAAA
801136 TAGAAAGAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (20 bp):
AAAAAAAACAACAAAAAAAC
Found at i:802391 original size:28 final size:28
Alignment explanation
Indices: 802351--802728 Score: 301
Period size: 28 Copynumber: 12.9 Consensus size: 28
802341 TGTTCATCTC
* *
802351 TTCAAAGCCCACAAGTGAGTGACACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
802379 TTCAAAGCCCACAAGTTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
802407 TTCAAAGCCTACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
* *
802436 TTCAAAGCCCACACGAGTCGGTGGCAACTCTT
1 TTCAAAGCCCACA--AGTCAGTGGC-AC-CCT
* *
802468 TTCAAAGCCTACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
802496 TTCAAAGCCCACGAGTC-GAAGGCAACTCTT
1 TTCAAAGCCCACAAGTCAG-TGGC-AC-CCT
* * * *
802526 TTCAAAACTCA-AGAGTCAATGGCATCCT
1 TTCAAAGCCCACA-AGTCAGTGGCACCCT
* * *
802554 TTTAAAGCCCACAAGTCTGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
802582 TTCAAACCCCACAAATCAATGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
802610 TTCAAAGCCCAAAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
** * *
802639 TTCAAAGCCCACAAACCAGTGGTAACTCTT
1 TTCAAAGCCCACAAGTCAGTGG-CAC-CCT
* *
802669 TTCAAAGCCCACACGAGTCGGTGGCAACTCTT
1 TTCAAAGCCCACA--AGTCAGTGGC-AC-CCT
*
802701 TTCAAAGCCCACACAAGTTAGTGGCACC
1 TTCAAAG-CC-CACAAGTCAGTGGCACC
802729 TTTGTAAAAA
Statistics
Matches: 284, Mismatches: 49, Indels: 32
0.78 0.13 0.09
Matches are distributed among these distances:
27 1 0.00
28 135 0.48
29 39 0.14
30 47 0.17
31 11 0.04
32 45 0.16
33 2 0.01
34 4 0.01
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.22
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCACCCT
Found at i:802686 original size:175 final size:175
Alignment explanation
Indices: 802376--802706 Score: 438
Period size: 175 Copynumber: 1.9 Consensus size: 175
802366 TGAGTGACAC
* * * * *
802376 CCTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCTACAAGTCAGTGGCACTCTTTTCAA
1 CCTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAACCCCACAAATCAATGGCACTCCTTTCAA
* * * ** *
802441 AGCCCACACGAGTCGGTGGCAACTCTTTTCAAAGCCTACAAGTCAGTGGCATCCTTTCAAAGCCC
66 AGCCCACACAAGTCAGTGGCAACTCTTTTCAAAGCCCACAAACCAGTGGAATCCTTTCAAAGCCC
802506 ACGAGTCGAAGGCAACTCTTTTCAAAACTCAAGAGTCAATGGCAT
131 ACGAGTCGAAGGCAACTCTTTTCAAAACTCAAGAGTCAATGGCAT
* *
802551 CCTTTTAAAGCCCACAAGTCT-GTGGCATCCTTTCAAACCCCACAAATCAATGGCAC-CCTTTCA
1 CCTTTCAAAGCCCACAAGT-TAGTGGCACCCTTTCAAACCCCACAAATCAATGGCACTCCTTTCA
*
802614 AAGCCCA-A-AAGTCAGTGGC-ACTCTTTTCAAAGCCCACAAACCAGTGGTAACTCTTTTCAAAG
65 AAGCCCACACAAGTCAGTGGCAACTCTTTTCAAAGCCCACAAACCAGTGG-AA-TCCTTTCAAAG
**
802676 CCCACACGAGTCGGTGGCAACTCTTTTCAAA
128 -CC-CACGAGTCGAAGGCAACTCTTTTCAAA
802707 GCCCACACAA
Statistics
Matches: 135, Mismatches: 16, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
171 25 0.19
172 10 0.07
173 11 0.08
174 15 0.11
175 73 0.54
176 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.24
Consensus pattern (175 bp):
CCTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAACCCCACAAATCAATGGCACTCCTTTCAA
AGCCCACACAAGTCAGTGGCAACTCTTTTCAAAGCCCACAAACCAGTGGAATCCTTTCAAAGCCC
ACGAGTCGAAGGCAACTCTTTTCAAAACTCAAGAGTCAATGGCAT
Found at i:803661 original size:20 final size:20
Alignment explanation
Indices: 803638--803692 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
803628 AAGTACCCAG
*
803638 ATGTATCGATACATTTTTGA
1 ATGTATCGATACATTTATGA
*
803658 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTATGA
*
803678 ATGTGTCGATACATT
1 ATGTATCGATACATT
803693 CTGTCTTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.31, C:0.11, G:0.18, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTATGA
Found at i:809868 original size:13 final size:13
Alignment explanation
Indices: 809850--809875 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
809840 ACATTTTGGA
809850 TGTATCGATACAT
1 TGTATCGATACAT
809863 TGTATCGATACAT
1 TGTATCGATACAT
809876 ATTGTGTATC
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:809872 original size:32 final size:30
Alignment explanation
Indices: 809831--809891 Score: 95
Period size: 32 Copynumber: 2.0 Consensus size: 30
809821 TACAAGCCAA
*
809831 TGTATCGATACATTTTGGATGTATCGATACAT
1 TGTATCGATACATATT-G-TGTATCGATACAT
809863 TGTATCGATACATATTGTGTATCGATACA
1 TGTATCGATACATATTGTGTATCGATACA
809892 AACAGTTAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 12 0.43
31 1 0.04
32 15 0.54
ACGTcount: A:0.30, C:0.13, G:0.18, T:0.39
Consensus pattern (30 bp):
TGTATCGATACATATTGTGTATCGATACAT
Found at i:809885 original size:17 final size:17
Alignment explanation
Indices: 809831--809891 Score: 67
Period size: 17 Copynumber: 3.7 Consensus size: 17
809821 TACAAGCCAA
*
809831 TGTATCGATACATTTTGG
1 TGTATCGATACATATT-G
809849 ATGTATCGATAC--A-T-
1 -TGTATCGATACATATTG
809863 TGTATCGATACATATTG
1 TGTATCGATACATATTG
809880 TGTATCGATACA
1 TGTATCGATACA
809892 AACAGTTAAG
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
13 11 0.30
15 1 0.03
16 2 0.05
17 12 0.32
19 11 0.30
ACGTcount: A:0.30, C:0.13, G:0.18, T:0.39
Consensus pattern (17 bp):
TGTATCGATACATATTG
Found at i:809991 original size:13 final size:13
Alignment explanation
Indices: 809973--809997 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
809963 ACATTTGGTC
809973 ATGTATCGATACA
1 ATGTATCGATACA
809986 ATGTATCGATAC
1 ATGTATCGATAC
809998 TGTGCAATAT
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):
ATGTATCGATACA
Found at i:811728 original size:13 final size:13
Alignment explanation
Indices: 811710--811745 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
811700 ATAAACCCTT
*
811710 TGTATCGATACAC
1 TGTATCGATACAA
811723 TGTATCGATACAA
1 TGTATCGATACAA
811736 TGTATCGATA
1 TGTATCGATA
811746 TAGAGAATGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:819290 original size:20 final size:20
Alignment explanation
Indices: 819265--819319 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
819255 CCAAACAGTA
819265 AATGTATCGATACATAAGTG
1 AATGTATCGATACATAAGTG
*
819285 AATGTATCAATACATAAGTG
1 AATGTATCGATACATAAGTG
819305 AATGTATCGATACAT
1 AATGTATCGATACAT
819320 GCCTTAAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.42, C:0.11, G:0.16, T:0.31
Consensus pattern (20 bp):
AATGTATCGATACATAAGTG
Found at i:821432 original size:39 final size:39
Alignment explanation
Indices: 821378--821574 Score: 349
Period size: 39 Copynumber: 5.1 Consensus size: 39
821368 TACGGAAATC
*
821378 ACTACCTTTTCACTACAAGGTTGAACTTTGATTACACCA
1 ACTACCCTTTCACTACAAGGTTGAACTTTGATTACACCA
821417 ACTACCCTTTCACTACAAGGTTGAACTTTGATTACACCA
1 ACTACCCTTTCACTACAAGGTTGAACTTTGATTACACCA
*
821456 ACTACCCTTTCACTACAAGGTTGAACTTTGAGTACACCA
1 ACTACCCTTTCACTACAAGGTTGAACTTTGATTACACCA
821495 ACTACCCTTTCACTACAAGGTTGAACTTTGATTACACCA
1 ACTACCCTTTCACTACAAGGTTGAACTTTGATTACACCA
* * *
821534 ATTACCCTTTCACTACAAGGTTAAACTTTGATTACCCCA
1 ACTACCCTTTCACTACAAGGTTGAACTTTGATTACACCA
821573 AC
1 AC
821575 AATATAGCTG
Statistics
Matches: 151, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 151 1.00
ACGTcount: A:0.31, C:0.28, G:0.10, T:0.31
Consensus pattern (39 bp):
ACTACCCTTTCACTACAAGGTTGAACTTTGATTACACCA
Found at i:824002 original size:13 final size:13
Alignment explanation
Indices: 823984--824010 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
823974 ACAATTTTTT
823984 TTGTATCGATACA
1 TTGTATCGATACA
823997 TTGTATCGATACA
1 TTGTATCGATACA
824010 T
1 T
824011 ACTTGCTGTA
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:826575 original size:13 final size:13
Alignment explanation
Indices: 826557--826582 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
826547 ATAATCACCC
826557 TGTATCGATACAA
1 TGTATCGATACAA
826570 TGTATCGATACAA
1 TGTATCGATACAA
826583 AGAAAAATGT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:829478 original size:13 final size:13
Alignment explanation
Indices: 829460--829485 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
829450 TAATTTTTTG
829460 TGTATCGATACAT
1 TGTATCGATACAT
829473 TGTATCGATACAT
1 TGTATCGATACAT
829486 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:833030 original size:51 final size:51
Alignment explanation
Indices: 832951--833082 Score: 194
Period size: 51 Copynumber: 2.6 Consensus size: 51
832941 ACCTAGATGT
* * *
832951 ATCGATACATT-ACAAAATGTATCGATACATCTGGGTAAAAAGATAGAATAT
1 ATCGATACATTGA-AAAATGTATCGATACATCTGGGTAAAAAGACAAAATAC
* *
833002 ATTGATACATTGAAAAATGTATCGATACATCTGGGTAAAAAGACAAAATGC
1 ATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAAGACAAAATAC
*
833053 ATCAATACATTGAAAAATGTATCGATACAT
1 ATCGATACATTGAAAAATGTATCGATACAT
833083 TGATACATGT
Statistics
Matches: 73, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
51 72 0.99
52 1 0.01
ACGTcount: A:0.45, C:0.12, G:0.15, T:0.27
Consensus pattern (51 bp):
ATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAAGACAAAATAC
Found at i:833071 original size:20 final size:20
Alignment explanation
Indices: 833046--833121 Score: 91
Period size: 20 Copynumber: 3.9 Consensus size: 20
833036 GTAAAAAGAC
* *
833046 AAAATGCATCAATACATTGA
1 AAAATGTATCGATACATTGA
833066 AAAATGTATCGATACATTGA
1 AAAATGTATCGATACATTGA
* *
833086 TACATGTATCGATACATTG-
1 AAAATGTATCGATACATTGA
* *
833105 AAAATGTGTCCATACAT
1 AAAATGTATCGATACAT
833122 CTGGGTAAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
19 13 0.27
20 35 0.73
ACGTcount: A:0.42, C:0.14, G:0.13, T:0.30
Consensus pattern (20 bp):
AAAATGTATCGATACATTGA
Found at i:834205 original size:32 final size:33
Alignment explanation
Indices: 834158--834267 Score: 117
Period size: 32 Copynumber: 3.5 Consensus size: 33
834148 CATTAGGTTT
*
834158 AGAAGGGTTACCACCAACTCGTGTGGGCTTTAA
1 AGAAGGGTTGCCACCAACTCGTGTGGGCTTTAA
834191 AGAA-GGTTGCCACCAACAT-GTGTGGGCTTT--
1 AGAAGGGTTGCCACCAAC-TCGTGTGGGCTTTAA
* *
834221 AGAAGGGTTGCCACCGAC-CTATGTGGGCTTT--
1 AGAAGGGTTGCCACCAACTC-GTGTGGGCTTTAA
834252 AGAAGAGGTTGCCACC
1 AGAAG-GGTTGCCACC
834268 GACTTGGGGG
Statistics
Matches: 69, Mismatches: 3, Indels: 11
0.83 0.04 0.13
Matches are distributed among these distances:
30 4 0.06
31 27 0.39
32 33 0.48
33 5 0.07
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.24
Consensus pattern (33 bp):
AGAAGGGTTGCCACCAACTCGTGTGGGCTTTAA
Found at i:834233 original size:31 final size:31
Alignment explanation
Indices: 834155--834383 Score: 157
Period size: 28 Copynumber: 7.7 Consensus size: 31
834145 CGACATTAGG
*
834155 TTTAGAAG-GGTTACCACCAACTCGTGTGGGC
1 TTTAGAAGAGGTTGCCACCAACT-GTGTGGGC
834186 TTTA-AAGAAGGTTGCCACCAACATGTGTGGGC
1 TTTAGAAG-AGGTTGCCACCAAC-TGTGTGGGC
* *
834218 TTTAGAAG-GGTTGCCACCGACCTATGTGGGC
1 TTTAGAAGAGGTTGCCACC-AACTGTGTGGGC
* *
834249 TTTAGAAGAGGTTGCCACCGACT-TGGGGGC
1 TTTAGAAGAGGTTGCCACCAACTGTGTGGGC
* **
834279 TTT-GAAAAGG-TGCCACTGACT-TGTGGG-
1 TTTAGAAGAGGTTGCCACCAACTGTGTGGGC
* **
834306 TTTTGAA-A-GTGTGCCACTGACT-TGTGGGC
1 TTTAGAAGAGGT-TGCCACCAACTGTGTGGGC
* **
834335 TTT-GAA-AGGATGCCACTGACT-TGTGGGC
1 TTTAGAAGAGGTTGCCACCAACTGTGTGGGC
* *
834363 TTT-GAA-AGGATGCCACTAACT
1 TTTAGAAGAGGTTGCCACCAACT
834384 TACGGGCTTT
Statistics
Matches: 176, Mismatches: 11, Indels: 25
0.83 0.05 0.12
Matches are distributed among these distances:
26 1 0.01
27 4 0.02
28 77 0.44
29 10 0.06
30 12 0.07
31 32 0.18
32 36 0.20
33 4 0.02
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.28
Consensus pattern (31 bp):
TTTAGAAGAGGTTGCCACCAACTGTGTGGGC
Found at i:834292 original size:28 final size:29
Alignment explanation
Indices: 834179--834739 Score: 501
Period size: 28 Copynumber: 19.6 Consensus size: 29
834169 CACCAACTCG
* * **
834179 TGTGGGCTTTAAAGAAGGTTGCCACCAACAT
1 TGTGGGCTTTGAA-AAGGATGCCACTGAC-T
* * *
834210 GTGTGGGCTTT-AGAAGGGTTGCCACCGACCT
1 -TGTGGGCTTTGA-AAAGGATGCCACTGA-CT
* * *
834241 ATGTGGGCTTTAGAAGAGGTTGCCACCGACT
1 -TGTGGGCTTT-GAAAAGGATGCCACTGACT
*
834272 TGGGGGCTTTGAAAAGG-TGCCACTGACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
*
834300 TGTGGGTTTTG-AAAGTG-TGCCACTGACT
1 TGTGGGCTTTGAAAAG-GATGCCACTGACT
834328 TGTGGGCTTTG-AAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
*
834356 TGTGGGCTTTG-AAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
**
834384 TACGGGCTTTGAAAAGG-TGCCACTGACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
** * * *
834412 TACGGGTTTTGAAAAGG-TGCCAATAACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
* *
834440 TATGGGCTTTG-AATGG-TGCCACT-AGCT
1 TGTGGGCTTTGAAAAGGATGCCACTGA-CT
* *
834467 TGTGGGCTTTGAAAAGGGTTGCCATTGACT
1 TGTGGGCTTTGAAAA-GGATGCCACTGACT
* * *
834497 TATGGGCTCT-AAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
* * *
834525 TGTGAGCTCT-AAAAGGATGCCATTGACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
* * * *
834553 TATAGGATTTG-AAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
*
834581 CGTGGGCTTTG-AAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
*
834609 TGTGGGCTCTG-AAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
*
834637 TGTGGGCTTTG-AAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
* *
834665 TGTGGGCTTTAAAAAGG-TGCAACTGACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
* * *
834693 TGTGGGCTTTTAAATGGGATGCCATTGACT
1 TGTGGGCTTTGAAA-AGGATGCCACTGACT
* *
834723 CGGGGGCTTTGAAAAGG
1 TGTGGGCTTTGAAAAGG
834740 TGTCATATTG
Statistics
Matches: 453, Mismatches: 60, Indels: 35
0.83 0.11 0.06
Matches are distributed among these distances:
26 1 0.00
27 27 0.06
28 301 0.66
29 26 0.06
30 45 0.10
31 27 0.06
32 25 0.06
33 1 0.00
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (29 bp):
TGTGGGCTTTGAAAAGGATGCCACTGACT
Found at i:836675 original size:14 final size:14
Alignment explanation
Indices: 836656--836686 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
836646 GAGCCATTTG
836656 TAGGCAAAATTTTA
1 TAGGCAAAATTTTA
836670 TAGGCAAAATTTTA
1 TAGGCAAAATTTTA
836684 TAG
1 TAG
836687 CATTCGAGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.42, C:0.06, G:0.16, T:0.35
Consensus pattern (14 bp):
TAGGCAAAATTTTA
Found at i:837203 original size:6 final size:6
Alignment explanation
Indices: 837192--837279 Score: 65
Period size: 6 Copynumber: 14.0 Consensus size: 6
837182 TCAAAAATTG
*
837192 AAAAAT AAAAAT AAAAGTAA AAAAAT AAAAAT CAAAAATT AAAAAAT AAAAAT
1 AAAAAT AAAAAT AAAA--AT AAAAAT AAAAAT -AAAAA-T -AAAAAT AAAAAT
**
837245 AAATGT AAAAA- AATAAA- AAAAAGT AAAAA- AAAAAT
1 AAAAAT AAAAAT AA-AAAT AAAAA-T AAAAAT AAAAAT
837280 CATGAAATGC
Statistics
Matches: 67, Mismatches: 7, Indels: 16
0.74 0.08 0.18
Matches are distributed among these distances:
5 10 0.15
6 35 0.52
7 11 0.16
8 11 0.16
ACGTcount: A:0.80, C:0.01, G:0.03, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:837203 original size:14 final size:14
Alignment explanation
Indices: 837179--837236 Score: 66
Period size: 14 Copynumber: 4.2 Consensus size: 14
837169 TAATAAGTAG
837179 AAATCAAAAATTGAA
1 AAATCAAAAATT-AA
837194 AAAT-AAAAA-TAA
1 AAATCAAAAATTAA
* * *
837206 AAGTAAAAAAATAA
1 AAATCAAAAATTAA
837220 AAATCAAAAATTAA
1 AAATCAAAAATTAA
837234 AAA
1 AAA
837237 ATAAAAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
12 5 0.14
13 6 0.16
14 22 0.59
15 4 0.11
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.17
Consensus pattern (14 bp):
AAATCAAAAATTAA
Found at i:837215 original size:20 final size:20
Alignment explanation
Indices: 837192--837275 Score: 118
Period size: 20 Copynumber: 4.2 Consensus size: 20
837182 TCAAAAATTG
837192 AAAAATAAAAATAAAAGTAA
1 AAAAATAAAAATAAAAGTAA
* *
837212 AAAAATAAAAATCAAAAATTA
1 AAAAATAAAAAT-AAAAGTAA
*
837233 AAAAATAAAAATAAATGTAA
1 AAAAATAAAAATAAAAGTAA
837253 AAAAAT-AAAA-AAAAGTAA
1 AAAAATAAAAATAAAAGTAA
837271 AAAAA
1 AAAAA
837276 AAATCATGAA
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
18 12 0.21
19 4 0.07
20 23 0.40
21 18 0.32
ACGTcount: A:0.80, C:0.01, G:0.04, T:0.15
Consensus pattern (20 bp):
AAAAATAAAAATAAAAGTAA
Found at i:837225 original size:41 final size:41
Alignment explanation
Indices: 837179--837263 Score: 152
Period size: 41 Copynumber: 2.1 Consensus size: 41
837169 TAATAAGTAG
*
837179 AAATCAAAAATTGAAAAATAAAAATAAAAGTAAAAAAATAA
1 AAATCAAAAATTAAAAAATAAAAATAAAAGTAAAAAAATAA
*
837220 AAATCAAAAATTAAAAAATAAAAATAAATGTAAAAAAATAA
1 AAATCAAAAATTAAAAAATAAAAATAAAAGTAAAAAAATAA
837261 AAA
1 AAA
837264 AAAGTAAAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.76, C:0.02, G:0.04, T:0.18
Consensus pattern (41 bp):
AAATCAAAAATTAAAAAATAAAAATAAAAGTAAAAAAATAA
Found at i:837242 original size:14 final size:14
Alignment explanation
Indices: 837179--837244 Score: 59
Period size: 14 Copynumber: 4.7 Consensus size: 14
837169 TAATAAGTAG
*
837179 AAATCAAAAATTGAA
1 AAAT-AAAAATTAAA
837194 AAATAAAAA-TAAA
1 AAATAAAAATTAAA
837207 AGTAA-AAAAA-T-AA
1 A--AATAAAAATTAAA
837220 AAATCAAAAATTAAA
1 AAAT-AAAAATTAAA
837235 AAATAAAAAT
1 AAATAAAAAT
837245 AAATGTAAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 13
0.76 0.02 0.22
Matches are distributed among these distances:
11 2 0.05
13 12 0.27
14 18 0.41
15 12 0.27
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.18
Consensus pattern (14 bp):
AAATAAAAATTAAA
Found at i:837256 original size:14 final size:14
Alignment explanation
Indices: 837198--837262 Score: 71
Period size: 14 Copynumber: 4.7 Consensus size: 14
837188 ATTGAAAAAT
837198 AAAAATAAAAGTAA
1 AAAAATAAAAGTAA
* *
837212 AAAAATAAAAATCA
1 AAAAATAAAAGTAA
*
837226 AAAATTAAAA--AA
1 AAAAATAAAAGTAA
*
837238 TAAAAATAAATGTAA
1 -AAAAATAAAAGTAA
837253 AAAAATAAAA
1 AAAAATAAAA
837263 AAAAGTAAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
12 1 0.02
13 8 0.20
14 30 0.73
15 2 0.05
ACGTcount: A:0.78, C:0.02, G:0.03, T:0.17
Consensus pattern (14 bp):
AAAAATAAAAGTAA
Found at i:837276 original size:10 final size:9
Alignment explanation
Indices: 837192--837276 Score: 57
Period size: 10 Copynumber: 8.6 Consensus size: 9
837182 TCAAAAATTG
837192 AAAAATAAA
1 AAAAATAAA
837201 AATAAA-AGTAA
1 AA-AAATA--AA
837212 AAAAATAAA
1 AAAAATAAA
837221 AATCAAA-AATTA
1 AA--AAATAA--A
837233 AAAAATAAA
1 AAAAATAAA
*
837242 AATAAATGTAA
1 AA-AAAT-AAA
837253 AAAAATAAA
1 AAAAATAAA
837262 AAAAAGTAAA
1 AAAAA-TAAA
837272 AAAAA
1 AAAAA
837277 AATCATGAAA
Statistics
Matches: 62, Mismatches: 2, Indels: 23
0.71 0.02 0.26
Matches are distributed among these distances:
9 17 0.27
10 28 0.45
11 14 0.23
12 3 0.05
ACGTcount: A:0.80, C:0.01, G:0.04, T:0.15
Consensus pattern (9 bp):
AAAAATAAA
Found at i:837276 original size:20 final size:19
Alignment explanation
Indices: 837192--837278 Score: 77
Period size: 19 Copynumber: 4.5 Consensus size: 19
837182 TCAAAAATTG
* *
837192 AAAAATAAAAATAAAAGTA
1 AAAAAAAAAAAAAAAAGTA
*
837211 AAAAAATAAAAATCAAAAATTA
1 AAAAAA-AAAAA--AAAAAGTA
* * *
837233 AAAAATAAAAATAAATGT-
1 AAAAAAAAAAAAAAAAGTA
*
837251 AAAAAAATAAAAAAAAGTA
1 AAAAAAAAAAAAAAAAGTA
837270 AAAAAAAAA
1 AAAAAAAAA
837279 TCATGAAATG
Statistics
Matches: 52, Mismatches: 12, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
18 14 0.27
19 17 0.33
20 5 0.10
21 5 0.10
22 11 0.21
ACGTcount: A:0.80, C:0.01, G:0.03, T:0.15
Consensus pattern (19 bp):
AAAAAAAAAAAAAAAAGTA
Found at i:837277 original size:41 final size:40
Alignment explanation
Indices: 837192--837279 Score: 115
Period size: 41 Copynumber: 2.1 Consensus size: 40
837182 TCAAAAATTG
**
837192 AAAAATAAAAATAAAAGTAAAAAAATAAAAATCAAAAATTA
1 AAAAATAAAAATAAAAGTAAAAAAATAAAAA-CAAAAAAAA
*
837233 AAAAATAAAAATAAATGTAAAAAAATAAAAA-AAAGTAAAAA
1 AAAAATAAAAATAAAAGTAAAAAAATAAAAACAAA--AAAAA
837274 AAAAAT
1 AAAAAT
837280 CATGAAATGC
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
39 3 0.07
41 39 0.93
ACGTcount: A:0.80, C:0.01, G:0.03, T:0.16
Consensus pattern (40 bp):
AAAAATAAAAATAAAAGTAAAAAAATAAAAACAAAAAAAA
Found at i:837278 original size:14 final size:13
Alignment explanation
Indices: 837192--837266 Score: 60
Period size: 14 Copynumber: 5.5 Consensus size: 13
837182 TCAAAAATTG
*
837192 AAAAATAAAAATA
1 AAAAAAAAAAATA
*
837205 AAAGTAAAAAAATA
1 AAA-AAAAAAAATA
* *
837219 AAAATCAAAAATTA
1 AAAA-AAAAAAATA
*
837233 AAAAATAAAAATA
1 AAAAAAAAAAATA
**
837246 AATGTAAAAAAATA
1 AA-AAAAAAAAATA
837260 AAAAAAA
1 AAAAAAA
837267 GTAAAAAAAA
Statistics
Matches: 46, Mismatches: 13, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
13 14 0.30
14 32 0.70
ACGTcount: A:0.80, C:0.01, G:0.03, T:0.16
Consensus pattern (13 bp):
AAAAAAAAAAATA
Found at i:837941 original size:21 final size:20
Alignment explanation
Indices: 837907--837953 Score: 67
Period size: 21 Copynumber: 2.3 Consensus size: 20
837897 AGCGTCCACC
* *
837907 AGCAGTAGCTTCCACGAACAT
1 AGCAGCAGCATCCACGAAC-T
837928 AGCAGCAGCATCCACGAACT
1 AGCAGCAGCATCCACGAACT
837948 AGCAGC
1 AGCAGC
837954 TCGAGCCTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 7 0.29
21 17 0.71
ACGTcount: A:0.34, C:0.32, G:0.21, T:0.13
Consensus pattern (20 bp):
AGCAGCAGCATCCACGAACT
Found at i:838006 original size:21 final size:21
Alignment explanation
Indices: 837973--838016 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
837963 TTCCGGCTTC
* *
837973 CACAACAGCAGCTTCCACGAG
1 CACAACAACAGCTTCAACGAG
* *
837994 CACAACAATAGCTTTAACGAG
1 CACAACAACAGCTTCAACGAG
838015 CA
1 CA
838017 ACCGATAGCA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.39, C:0.32, G:0.16, T:0.14
Consensus pattern (21 bp):
CACAACAACAGCTTCAACGAG
Found at i:838064 original size:47 final size:47
Alignment explanation
Indices: 838013--838126 Score: 138
Period size: 47 Copynumber: 2.4 Consensus size: 47
838003 AGCTTTAACG
** *
838013 AGCAACCGATAGCAACTCCAGCTTCCATGGCAGTAGCAGCTTCCACA
1 AGCAACCGATAGCAACTCCAGCTTCCACAGCAGCAGCAGCTTCCACA
** * * **
838060 AGCAACCGGCAGCAACTCAAGCTTCCACAGTAGCAGCAGCTTCCATG
1 AGCAACCGATAGCAACTCCAGCTTCCACAGCAGCAGCAGCTTCCACA
*
838107 AGCAACCGATAGCGACTCCA
1 AGCAACCGATAGCAACTCCA
838127 TGAGCATAGC
Statistics
Matches: 54, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
47 54 1.00
ACGTcount: A:0.31, C:0.34, G:0.20, T:0.15
Consensus pattern (47 bp):
AGCAACCGATAGCAACTCCAGCTTCCACAGCAGCAGCAGCTTCCACA
Found at i:841878 original size:12 final size:12
Alignment explanation
Indices: 841861--841885 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
841851 ATCAAGGGGG
841861 AGAAATTTTTAT
1 AGAAATTTTTAT
841873 AGAAATTTTTAT
1 AGAAATTTTTAT
841885 A
1 A
841886 AGCCTTAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (12 bp):
AGAAATTTTTAT
Found at i:842488 original size:20 final size:20
Alignment explanation
Indices: 842450--842500 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
842440 TCGATACATT
*
842450 TATCGATACAT-GTTAATTG
1 TATCGATACATGGATAATTG
842469 TATCGATACATGGATAATTG
1 TATCGATACATGGATAATTG
842489 TATCGATACATG
1 TATCGATACATG
842501 AAACTGGCAA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 11 0.37
20 19 0.63
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (20 bp):
TATCGATACATGGATAATTG
Found at i:842554 original size:20 final size:20
Alignment explanation
Indices: 842529--842582 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
842519 CTATCACTGT
842529 TTGTATCGATACATGGT-ACA
1 TTGTATCGATACATGGTGA-A
* *
842549 TTGTATCGATATATGTTGAA
1 TTGTATCGATACATGGTGAA
842569 TTGTATCGATACAT
1 TTGTATCGATACAT
842583 TGCTTCTAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
20 29 0.97
21 1 0.03
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.41
Consensus pattern (20 bp):
TTGTATCGATACATGGTGAA
Found at i:846166 original size:79 final size:79
Alignment explanation
Indices: 846082--846241 Score: 207
Period size: 79 Copynumber: 2.0 Consensus size: 79
846072 AGTGTCCTCG
* * **
846082 ATTATGAAAAATTGATGTTTTAGAAATAAAACCA-AGGTTGGAGTATCCCCTCGGAAATAAC-GT
1 ATTATGAAAAATTAATATTTTAGAAATAAAACCAGA-GTTGGAGTATCCCCTCAAAAATAACAG-
*
846145 GGTTGGAGTATCCCCA
64 GATTGGAGTATCCCCA
* * * *
846161 ATTATGAGAAATTAATATTTTAGAAATAAAGCCGGAGTTGGAGTATCCCCTTAAAAATAACAGGA
1 ATTATGAAAAATTAATATTTTAGAAATAAAACCAGAGTTGGAGTATCCCCTCAAAAATAACAGGA
846226 TTGGAGTATCCCCA
66 TTGGAGTATCCCCA
846240 AT
1 AT
846242 GACATAATGG
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
79 68 0.97
80 2 0.03
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (79 bp):
ATTATGAAAAATTAATATTTTAGAAATAAAACCAGAGTTGGAGTATCCCCTCAAAAATAACAGGA
TTGGAGTATCCCCA
Found at i:846343 original size:28 final size:27
Alignment explanation
Indices: 846303--846372 Score: 97
Period size: 28 Copynumber: 2.6 Consensus size: 27
846293 ATAAAGCCGA
*
846303 GGTTGGAGTATCCCCTTGAAAATAACGG
1 GGTTGGAGTATCCCCATG-AAATAACGG
*
846331 GGTTGGAGTATCCTCGATGAAATAACGG
1 GGTTGGAGTATCC-CCATGAAATAACGG
846359 GGTTGGAGTA-CCCC
1 GGTTGGAGTATCCCC
846373 GATTATGAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 32 0.84
29 3 0.08
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (27 bp):
GGTTGGAGTATCCCCATGAAATAACGG
Found at i:846435 original size:109 final size:107
Alignment explanation
Indices: 846117--846494 Score: 469
Period size: 107 Copynumber: 3.5 Consensus size: 107
846107 ATAAAACCAA
*** * * * *
846117 GGTTGGAGTATCCCCTCGGAAATAACGTGGTTGGAGTATCCCCAATTATGAGAAATTAATA-TTT
1 GGTTGGAGTATCCCCAATGAAATAACGGGGTTGGAGTATCCCCAATTATGAAAAATCAACATTTT
* * *
846181 TAGAAATAAAGCCGGAGTTGGAGTATCCCCTTAAAAATAACAG
66 TAGATATAAAGCCGG-GTTGGAGTATCCCCTTGAAAATAACGG
* * * *
846224 GATTGGAGTATCCCCAATGACATAATGGGGTTGGAGTA-CCCTCGATTATGAAAAATC-AC-TAT
1 GGTTGGAGTATCCCCAATGAAATAACGGGGTTGGAGTATCCC-CAATTATGAAAAATCAACAT-T
846286 TTTAGATATAAAGCCGAGGTTGGAGTATCCCCTTGAAAATAACGG
64 TTTAGATATAAAGCCG-GGTTGGAGTATCCCCTTGAAAATAACGG
* * * *
846331 GGTTGGAGTATCCTCGATGAAATAACGGGGTTGGAGTA-CCCCGATTATGAAAAAAAACAACATT
1 GGTTGGAGTATCCCCAATGAAATAACGGGGTTGGAGTATCCCCAATTATG--AAAAATCAACATT
* *
846395 TTTAGATATAAAGCCAGGGTTGGAGTATCCCCTCGGAAATAACGG
64 TTTAGATATAAAGCC-GGGTTGGAGTATCCCCTTGAAAATAACGG
*
846440 GGTTGGAGTATCCCCAATGAAATAACGGGGTTGGAGTATCCCCAATTGTGAAAAA
1 GGTTGGAGTATCCCCAATGAAATAACGGGGTTGGAGTATCCCCAATTATGAAAAA
846495 CTGGTGTTTT
Statistics
Matches: 235, Mismatches: 26, Indels: 19
0.84 0.09 0.07
Matches are distributed among these distances:
106 12 0.05
107 120 0.51
108 12 0.05
109 80 0.34
110 11 0.05
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (107 bp):
GGTTGGAGTATCCCCAATGAAATAACGGGGTTGGAGTATCCCCAATTATGAAAAATCAACATTTT
TAGATATAAAGCCGGGTTGGAGTATCCCCTTGAAAATAACGG
Found at i:846485 original size:28 final size:28
Alignment explanation
Indices: 846411--846485 Score: 123
Period size: 28 Copynumber: 2.7 Consensus size: 28
846401 TATAAAGCCA
***
846411 GGGTTGGAGTATCCCCTCGGAAATAACG
1 GGGTTGGAGTATCCCCAATGAAATAACG
846439 GGGTTGGAGTATCCCCAATGAAATAACG
1 GGGTTGGAGTATCCCCAATGAAATAACG
846467 GGGTTGGAGTATCCCCAAT
1 GGGTTGGAGTATCCCCAAT
846486 TGTGAAAAAC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.23
Consensus pattern (28 bp):
GGGTTGGAGTATCCCCAATGAAATAACG
Found at i:848499 original size:33 final size:33
Alignment explanation
Indices: 848462--848529 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 33
848452 AATGCCTAAT
*
848462 TGTATCGATACATTGTA-AAATGTAACGATACAA
1 TGTATCGATACAATG-AGAAATGTAACGATACAA
* *
848495 TGTATCGATACAATGAGCAATGTATCGATACAA
1 TGTATCGATACAATGAGAAATGTAACGATACAA
848528 TG
1 TG
848530 AACAATGTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
32 1 0.03
33 30 0.97
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.29
Consensus pattern (33 bp):
TGTATCGATACAATGAGAAATGTAACGATACAA
Found at i:848515 original size:20 final size:20
Alignment explanation
Indices: 848491--848547 Score: 105
Period size: 20 Copynumber: 2.9 Consensus size: 20
848481 ATGTAACGAT
848491 ACAATGTATCGATACAATGA
1 ACAATGTATCGATACAATGA
*
848511 GCAATGTATCGATACAATGA
1 ACAATGTATCGATACAATGA
848531 ACAATGTATCGATACAA
1 ACAATGTATCGATACAA
848548 ATTGTGAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.44, C:0.16, G:0.16, T:0.25
Consensus pattern (20 bp):
ACAATGTATCGATACAATGA
Found at i:848528 original size:13 final size:13
Alignment explanation
Indices: 848480--848509 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
848470 TACATTGTAA
848480 AATGTAACGATAC
1 AATGTAACGATAC
*
848493 AATGTATCGATAC
1 AATGTAACGATAC
848506 AATG
1 AATG
848510 AGCAATGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.27
Consensus pattern (13 bp):
AATGTAACGATAC
Found at i:849297 original size:42 final size:42
Alignment explanation
Indices: 849204--849401 Score: 184
Period size: 42 Copynumber: 4.6 Consensus size: 42
849194 AAAAGGAGTA
* * *
849204 CGTCCTGCT-TTTCGAGGATAAAGGAAAAAAAGGAAAACAAAATG
1 CGTCCTGCTCTTT-GAGGATAAA--AAAAAGAGGAAAATAAAGTG
* * *
849248 CGCCCTGCTTTTTAAGGATAAAAAAAAGAGGAAAATAAAGTG
1 CGTCCTGCTCTTTGAGGATAAAAAAAAGAGGAAAATAAAGTG
* * *
849290 CGTCCTGCTCTTTGAGGACAAAATAGAAA-AGAAAGGAATGAAGTG
1 CGTCCTGCTCTTTGAGGATAAAA-A-AAAGAGGAA--AATAAAGTG
* * **
849335 TGTCCTGCTCTTTGAGGACAAAGGAAAGAGGAAAATAAAGTG
1 CGTCCTGCTCTTTGAGGATAAAAAAAAGAGGAAAATAAAGTG
*
849377 CGTCCTGCTATTTGAGGACTAAAAA
1 CGTCCTGCTCTTTGAGGA-TAAAAA
849402 GTGCCACCAA
Statistics
Matches: 126, Mismatches: 21, Indels: 15
0.78 0.13 0.09
Matches are distributed among these distances:
42 60 0.48
43 11 0.09
44 23 0.18
45 32 0.25
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (42 bp):
CGTCCTGCTCTTTGAGGATAAAAAAAAGAGGAAAATAAAGTG
Found at i:849584 original size:60 final size:61
Alignment explanation
Indices: 849371--849614 Score: 298
Period size: 61 Copynumber: 4.0 Consensus size: 61
849361 AGAGGAAAAT
* * * * *
849371 AAAGTGCGTCCTGCTATTTGAGGACTA-AAAAGTGCCACCAACTAGTGTAGGCTTTAAAAAAG
1 AAAG-GCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT-GAAAGG
* * *
849433 AAAGGCGTCTTGCTCTTTGAGGACT-GGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAG
1 AAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTG-AAAG-G
* * *
849495 AAA-GCATCCTGCTCTTTGAGGACTGGAAAA-TGCCACAAACTTGTGTGGGCTTTGAAAGG
1 AAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGG
* * *
849554 AAAGGTGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACTAACTTGTGTGGGCTTTAAAAGG
1 AAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGG
849615 TATCCTGCTC
Statistics
Matches: 158, Mismatches: 18, Indels: 13
0.84 0.10 0.07
Matches are distributed among these distances:
59 4 0.03
60 28 0.18
61 115 0.73
62 11 0.07
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (61 bp):
AAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGG
Found at i:849758 original size:94 final size:92
Alignment explanation
Indices: 849564--849735 Score: 240
Period size: 94 Copynumber: 1.9 Consensus size: 92
849554 AAAGGTGTCC
* *
849564 TGCTCTTTGAGGACTAGAAAAGTGCCACTAACTTGTGTGGGCTTTAAAAGGTATCCTGCTCTTTG
1 TGCTTTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGTATCCTGCTCTTTG
* * * *
849629 AGGACTAAAGGGCGAAAGGAGAGAGCATTT
66 AGGACTAAA--G-AAAAGGACACAACATTT
*
849659 TGCTTTTTGAGGACTAGGAAA-TGCCACCAACTTGTGTGGGCTTTAAAAGGTATCCTGCTCTTTG
1 TGCTTTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGTATCCTGCTCTTTG
849723 AGGACTAAA-AAAA
66 AGGACTAAAGAAAA
849736 TGCCACCAAC
Statistics
Matches: 73, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
90 3 0.04
94 51 0.70
95 19 0.26
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.28
Consensus pattern (92 bp):
TGCTTTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGTATCCTGCTCTTTG
AGGACTAAAGAAAAGGACACAACATTT
Found at i:849776 original size:150 final size:152
Alignment explanation
Indices: 849504--849784 Score: 415
Period size: 150 Copynumber: 1.8 Consensus size: 152
849494 GAAAGCATCC
*
849504 TGCTCTTTGAGGACTGGAAAATGCCACAAACTTGTGTGGGCTTTGAAAGGAAAGGTGTCCTGCTC
1 TGCTCTTTGAGGACTGGAAAATGCCACAAACTTGTGTGGGCTTT--AA-GAAAGGTATCCTGCTC
* * * * *
849569 TTTGAGGACTAGAAAAGTGCCACTAACTTGTGTGGGCTTTAAAAGGTATCCTGCTCTTTGAGGAC
63 TTTGAGGACTAAAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTACTCTTTGAGGAC
849634 TAAAGGGCGAAAGGAGAGAGCATTT
128 TAAAGGGCGAAAGGAGAGAGCATTT
* *
849659 TGCTTTTTGAGGACTAGG-AAATGCCACCAACTTGTGTGGGCTTT-A-AAAGGTATCCTGCTCTT
1 TGCTCTTTGAGGACT-GGAAAATGCCACAAACTTGTGTGGGCTTTAAGAAAGGTATCCTGCTCTT
* *
849721 TGAGGACTAAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTACTCTTTGAGGACT
65 TGAGGACTAAAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTACTCTTTGAGGACT
849785 GAATGGTGCC
Statistics
Matches: 115, Mismatches: 10, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
150 73 0.63
152 1 0.01
155 39 0.34
156 2 0.02
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (152 bp):
TGCTCTTTGAGGACTGGAAAATGCCACAAACTTGTGTGGGCTTTAAGAAAGGTATCCTGCTCTTT
GAGGACTAAAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTACTCTTTGAGGACTAA
AGGGCGAAAGGAGAGAGCATTT
Found at i:849814 original size:55 final size:57
Alignment explanation
Indices: 849659--850174 Score: 456
Period size: 55 Copynumber: 8.8 Consensus size: 57
849649 GAGAGCATTT
* *
849659 TGCTTTTTGAGGACTAGGAAA--TGCCACCAACTTGTGTGGGCTTT--AAAAGGTATCC
1 TGCTCTTTGAGGACTA--AAAGGTGCCACCAACTTGTGTGGGCTTTAGAAAAGGCATCC
** *
849714 TGCTCTTTGAGGACTAAAAAAATGCCACCAACTTGTGTGGGCTTT-G-AAAGGCGTCC
1 TGCTCTTTGAGGACT-AAAAGGTGCCACCAACTTGTGTGGGCTTTAGAAAAGGCATCC
* * * *
849770 TACTCTTTGAGGACTGAATGGTGCCACCAACTTGTGTGGGCTTT-GAAAA-GCGTCC
1 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAGAAAAGGCATCC
* *
849825 TGCTCTTTGAAGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCC
1 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT---A-GAAAAGGCATCC
* * * *
849886 TTCTCTTTGAGGAAT-AAAGGTGCCACCAACTTCTGTAGGCTTTAAAAAGAAAAAGGCATCC
1 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT----AG-AAAAGGCATCC
* * * * * *
849947 TGTTCTTTGAGGACTAGAGGGTGCCACCAACTCGTGTGGGCTTCGAAGGAGAAGGCATCC
1 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTT--TA-GAAAAGGCATCC
* * * **
850007 TACTCTTTGAGGACTAAAGGGTGCCACCAACTTATGTGGGCTTTAAAAGGAAAAAAGGTTTCC
1 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT---A-G--AAAAGGCATCC
850070 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGGCATCC
1 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT----AG-AAAAGGCATCC
** * * *
850132 TGCTCTTTGAGGACTGGAGGGTGCCACCAACTCGTGTAGGCTT
1 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTT
850175 CGAAGGAGAA
Statistics
Matches: 390, Mismatches: 48, Indels: 39
0.82 0.10 0.08
Matches are distributed among these distances:
54 3 0.01
55 86 0.22
56 49 0.13
60 81 0.21
61 47 0.12
62 70 0.18
63 50 0.13
64 4 0.01
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (57 bp):
TGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAGAAAAGGCATCC
Found at i:849913 original size:60 final size:60
Alignment explanation
Indices: 849659--850214 Score: 509
Period size: 60 Copynumber: 9.4 Consensus size: 60
849649 GAGAGCATTT
* **
849659 TGCTTTTTGAGGACTAGGAAA--TGCCACCAACTTGTGTGGGCTTT-----AAAAGGTATCC
1 TGCTCTTTGAGGACTA--AAAGGTGCCACCAACTTGTGTGGGCTTTAAAGGAAAAGGCGTCC
**
849714 TGCTCTTTGAGGACTAAAAAAATGCCACCAACTTGTGTGGGCTTT----G-AAAGGCGTCC
1 TGCTCTTTGAGGACT-AAAAGGTGCCACCAACTTGTGTGGGCTTTAAAGGAAAAGGCGTCC
* * *
849770 TACTCTTTGAGGACTGAATGGTGCCACCAACTTGTGTGGGCTTT----GAAAA-GCGTCC
1 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAGGAAAAGGCGTCC
*
849825 TGCTCTTTGAAGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCC
1 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAGGAAAAGGCGTCC
* * * * * *
849886 TTCTCTTTGAGGAAT-AAAGGTGCCACCAACTTCTGTAGGCTTTAAAAAGAAAAAGGCATCC
1 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT--AAAGGAAAAGGCGTCC
* * * * ** * *
849947 TGTTCTTTGAGGACTAGAGGGTGCCACCAACTCGTGTGGGCTTCGAAGGAGAAGGCATCC
1 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAGGAAAAGGCGTCC
* * * **
850007 TACTCTTTGAGGACTAAAGGGTGCCACCAACTTATGTGGGCTTTAAAAGGAAAAAAGGTTTCC
1 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAGG--AAAAGGCGTCC
* *
850070 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGGCATCC
1 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT--AAAGGAAAAGGCGTCC
** * * * ** * * *
850132 TGCTCTTTGAGGACTGGAGGGTGCCACCAACTCGTGTAGGCTTCGAAGGAGAAGGTGCCC
1 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAGGAAAAGGCGTCC
* *
850192 TGCTCTTTGAGCACTAAAGGGTG
1 TGCTCTTTGAGGACTAAAAGGTG
850215 AAAGGAGAGA
Statistics
Matches: 421, Mismatches: 63, Indels: 29
0.82 0.12 0.06
Matches are distributed among these distances:
54 3 0.01
55 86 0.20
56 49 0.12
60 112 0.27
61 48 0.11
62 69 0.16
63 49 0.12
64 5 0.01
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (60 bp):
TGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAGGAAAAGGCGTCC
Found at i:850141 original size:185 final size:182
Alignment explanation
Indices: 849703--850214 Score: 654
Period size: 185 Copynumber: 2.9 Consensus size: 182
849693 TGTGGGCTTT
**
849703 AAAAGGTATCCTGCTCTTTGAGGACTAAAAAAATGCCACCAACTTGTGTGGGCTTT-----G--A
1 AAAAGGTATCCTGCTCTTTGAGGACT-AAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAA
* * * * *
849761 AAGGCGTCCTACTCTTTGAGGACTGAATGGTGCCACCAACTTGTGTGGGCTTTG-A--A-AA-GC
65 AAGGCATCCTGCTCTTTGAGGACTG-AGGGTGCCACCAACTCGTGTGGGCTTCGAAGGAGAAGGC
* * * *
849821 GTCCTGCTCTTTGAAGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG
129 GTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTATGTGGGCTTTAAAAGG
** * * * *
849875 AAAAGGCGTCCTTCTCTTTGAGGAAT-AAAGGTGCCACCAACTTCTGTAGGCTTTAAAAAGAAAA
1 AAAAGGTATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAA
* *
849939 AGGCATCCTGTTCTTTGAGGACTAGAGGGTGCCACCAACTCGTGTGGGCTTCGAAGGAGAAGGCA
66 AGGCATCCTGCTCTTTGAGGACT-GAGGGTGCCACCAACTCGTGTGGGCTTCGAAGGAGAAGGCG
*
850004 TCCTACTCTTTGAGGACTAAAGGGTGCCACCAACTTATGTGGGCTTTAAAAGG
130 TCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTATGTGGGCTTTAAAAGG
*
850057 AAAAAAGGTTTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAA
1 --AAAAGGTATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAA
*
850122 AAAGGCATCCTGCTCTTTGAGGACTGGAGGGTGCCACCAACTCGTGTAGGCTTCGAAGGAGAAGG
64 AAAGGCATCCTGCTCTTTGAGGACT-GAGGGTGCCACCAACTCGTGTGGGCTTCGAAGGAGAAGG
* * *
850187 TGCCCTGCTCTTTGAGCACTAAAGGGTG
128 CGTCCTGCTCTTTGAGGACTAAAGGGTG
850215 AAAGGAGAGA
Statistics
Matches: 290, Mismatches: 34, Indels: 19
0.85 0.10 0.06
Matches are distributed among these distances:
170 24 0.08
172 22 0.08
175 1 0.00
177 47 0.16
178 2 0.01
180 1 0.00
181 2 0.01
182 50 0.17
184 22 0.08
185 119 0.41
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.25
Consensus pattern (182 bp):
AAAAGGTATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAA
AGGCATCCTGCTCTTTGAGGACTGAGGGTGCCACCAACTCGTGTGGGCTTCGAAGGAGAAGGCGT
CCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTATGTGGGCTTTAAAAGG
Found at i:850310 original size:63 final size:61
Alignment explanation
Indices: 850231--850614 Score: 513
Period size: 61 Copynumber: 6.2 Consensus size: 61
850221 GAGAGCATCT
* *
850231 TGCTTTTTAAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAGAAAAGGCGTCC
1 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAG-GAAAAGGCGTCC
* * *
850294 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTG-AAGGAGAAGGCATCC
1 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCC
* * * * *
850354 TGCTCTTTGAGAACTAAAGGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAGGCTTCC
1 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCC
* * *
850415 TGCTCTTTGAGGACTAAAGGGTGCCACCAACTTATGTGGGCTTTGAAAGGAAAAGGTG-CC
1 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCC
* *
850475 GTGCTCTTTGAGGACTAGAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCATCC
1 -TGCTCTTTGAGGACT--AAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCC
* * * *
850539 TACTCTTTGAGGACT-AAAGGTGCCACCAACTGGTGTGGGTTTTGAAAAGAAAAAGGCGTCC
1 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAGGAAAAGGCGTCC
*
850600 TACTCTTTGAGGACT
1 TGCTCTTTGAGGACT
850615 GGAAGGGCTA
Statistics
Matches: 286, Mismatches: 29, Indels: 14
0.87 0.09 0.04
Matches are distributed among these distances:
60 78 0.27
61 112 0.39
63 94 0.33
64 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (61 bp):
TGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCC
Found at i:850322 original size:162 final size:161
Alignment explanation
Indices: 850070--850376 Score: 488
Period size: 162 Copynumber: 1.9 Consensus size: 161
850060 AAAGGTTTCC
*
850070 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGGCATCCTGC
1 TGCTCTTTAAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGGCATCCTGC
** * **
850135 TCTTTGAGGACTGGAGGGTGCCACCAACTCGTGTAGGCTTCGAAGGAGAAGGTGCCCTGCTCTTT
66 TCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTAGGCTTCGAAGGAGAAGGCACCCTGCTCTTT
*
850200 GAGCACTAAAGGGTGAAAGGAGAGAGCATCT
131 GAGAACTAAAGGGTGAAAGGAGAGAGCATCT
* * *
850231 TGCTTTTTAAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAGAAAAGGCGTCCTG
1 TGCTCTTTAAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGA-AAAAGGCATCCTG
* * *
850296 CTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAGGAGAAGGCATCCTGCTCTT
65 CTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTAGGCTTCGAAGGAGAAGGCACCCTGCTCTT
850361 TGAGAACTAAAGGGTG
130 TGAGAACTAAAGGGTG
850377 CCACCAACTT
Statistics
Matches: 132, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
161 48 0.36
162 84 0.64
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.24
Consensus pattern (161 bp):
TGCTCTTTAAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGGCATCCTGC
TCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTAGGCTTCGAAGGAGAAGGCACCCTGCTCTTT
GAGAACTAAAGGGTGAAAGGAGAGAGCATCT
Found at i:850344 original size:347 final size:346
Alignment explanation
Indices: 849901--850558 Score: 966
Period size: 347 Copynumber: 1.9 Consensus size: 346
849891 TTTGAGGAAT
* * *
849901 AAAGGTGCCACCAACTTCTGTAGGCTTTAAAAAGAAAAAGGCATCCTGTTCTTTGAGGACTAGAG
1 AAAGGTGCCACCAACTTCTGTAGGCTTTAAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAA
*
849966 GGTGCCACCAACTCGTGTGGGCTTCGAAGGAGAAGGCATCCTACTCTTTGAGGACTAAAGGGTGC
66 GGTGCCACCAACTCGTGTGGGCTTCGAAGGAGAAGGCATCCTACTCTTTGAGAACTAAAGGGTGC
* *
850031 CACCAACTTATGTGGGCTTTAAAAGGAAAAAAGGTTTCCTGCTCTTTGAGGACTAAAAGGTGCCA
131 CACCAACTTATGTAGGCTTTAAAAGG--AAAAGGCTTCCTGCTCTTTGAGGACTAAAAGGTGCCA
* * **
850096 CCAACTTGTGTGGGCTTTAAAAAGAAAAAGGCAT-CC-TGCTCTTTGAGGACT-G-GAGGGTGCC
194 CCAACTTATGTGGGCTTT-AAAAGAAAAAGG--TGCCGTGCTCTTTGAGGACTAGAAAAAGTGCC
* ** *
850157 ACCAACTCGTGTAGGCTTCG-AAGGAGAAGGTGCCCTGCTCTTTGAGCACTAAAGGGTGAAAGGA
256 ACCAACTCGTGTAGGCTTCGAAAGGAAAAGGCACCCTACTCTTTGAGCACTAAAGGGTGAAAGGA
850221 GAGAGCATCTTGCTTTTTAAGGACTA
321 GAGAGCATCTTGCTTTTTAAGGACTA
* * * *
850247 AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAGAAAAGGCGTCCTGCTCTTTGAGGACTAAA
1 AAAGGTGCCACCAACTTCTGTAGGCTTTAAAAAGA-AAAAGGCATCCTGCTCTTTGAGGACTAAA
* *
850312 AGGTGCCACCAACTCGTGTGGGCTTTGAAGGAGAAGGCATCCTGCTCTTTGAGAACTAAAGGGTG
65 AGGTGCCACCAACTCGTGTGGGCTTCGAAGGAGAAGGCATCCTACTCTTTGAGAACTAAAGGGTG
* *
850377 CCACCAACTTGTGTAGGCTTTAAAAGGAAAAGGCTTCCTGCTCTTTGAGGACTAAAGGGTGCCAC
130 CCACCAACTTATGTAGGCTTTAAAAGGAAAAGGCTTCCTGCTCTTTGAGGACTAAAAGGTGCCAC
* *
850442 CAACTTATGTGGGCTTTGAAAGGAAAAGGTGCCGTGCTCTTTGAGGACTAGAAAAAGTGCCACCA
195 CAACTTATGTGGGCTTTAAAAGAAAAAGGTGCCGTGCTCTTTGAGGACTAGAAAAAGTGCCACCA
* * * * *
850507 ACTTGTGTGGGCTTTGAAAGGAAAAGGCATCCTACTCTTTGAGGACTAAAGG
260 ACTCGTGTAGGCTTCGAAAGGAAAAGGCACCCTACTCTTTGAGCACTAAAGG
850559 TGCCACCAAC
Statistics
Matches: 277, Mismatches: 29, Indels: 11
0.87 0.09 0.03
Matches are distributed among these distances:
342 1 0.00
343 2 0.01
344 25 0.09
345 53 0.19
346 55 0.20
347 141 0.51
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (346 bp):
AAAGGTGCCACCAACTTCTGTAGGCTTTAAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAA
GGTGCCACCAACTCGTGTGGGCTTCGAAGGAGAAGGCATCCTACTCTTTGAGAACTAAAGGGTGC
CACCAACTTATGTAGGCTTTAAAAGGAAAAGGCTTCCTGCTCTTTGAGGACTAAAAGGTGCCACC
AACTTATGTGGGCTTTAAAAGAAAAAGGTGCCGTGCTCTTTGAGGACTAGAAAAAGTGCCACCAA
CTCGTGTAGGCTTCGAAAGGAAAAGGCACCCTACTCTTTGAGCACTAAAGGGTGAAAGGAGAGAG
CATCTTGCTTTTTAAGGACTA
Found at i:850473 original size:284 final size:283
Alignment explanation
Indices: 849956--850491 Score: 754
Period size: 284 Copynumber: 1.9 Consensus size: 283
849946 CTGTTCTTTG
* * *
849956 AGGACTAGAGGGTGCCACCAACTCGTGTGGGCTTCGAAGGAGAAGGCATCCTACTCTTTGAGGAC
1 AGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTCGAAGGAAAAGGCATCCTACTCTTTGAGGAC
* * ** *
850021 TAAAGGGTGCCACCAACTTATGTGGGCTTTAAAAGGAAAAAAGGTTTCCTGCTCTTTGAGGACTA
66 TAAAAGGTGCCACCAACTCATGTGGGCTTTAAAAGG-AAAAAGGCATCCTGCTCTTTGAGAACTA
* **
850086 AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTGGAG
130 AAAGGTGCCACCAACTTGTGTAGGCTTTAAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAG
* *
850151 GGTGCCACCAACTCGTGTAGGCTTCGAAGGAGAAGGTGCCCTGCTCTTTGAGCACTAAAGGGTGA
195 GGTGCCACCAACTCATGTAGGCTTCGAAGGAAAAGGTGCCCTGCTCTTTGAGCACTAAAGGGTGA
850216 AAGGAGAGAGCATCTTGCTTTTTA
260 AAGGAGAGAGCATCTTGCTTTTTA
* * * *
850240 AGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAGAAAAGGCGTCCTGCTCTTTGAG
1 AGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTCG--AAG-GAAAAGGCATCCTACTCTTTGAG
* * *
850305 GACTAAAAGGTGCCACCAACTCGTGTGGGCTTT-GAAGG-AGAAGGCATCCTGCTCTTTGAGAAC
63 GACTAAAAGGTGCCACCAACTCATGTGGGCTTTAAAAGGAAAAAGGCATCCTGCTCTTTGAGAAC
* * *
850368 TAAAGGGTGCCACCAACTTGTGTAGGCTTT-AAAAGGAAAAGGCTTCCTGCTCTTTGAGGACTAA
128 TAAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAA
* * * * *
850432 AGGGTGCCACCAACTTATGTGGGCTTTGAAAGGAAAAGGTGCCGTGCTCTTTGAGGACTA
193 AGGGTGCCACCAACTCATGTAGGCTTCG-AAGGAAAAGGTGCCCTGCTCTTTGAGCACTA
850492 GAAAAAGTGC
Statistics
Matches: 220, Mismatches: 28, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
283 54 0.25
284 109 0.50
286 7 0.03
287 50 0.23
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.24
Consensus pattern (283 bp):
AGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTCGAAGGAAAAGGCATCCTACTCTTTGAGGAC
TAAAAGGTGCCACCAACTCATGTGGGCTTTAAAAGGAAAAAGGCATCCTGCTCTTTGAGAACTAA
AAGGTGCCACCAACTTGTGTAGGCTTTAAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAGG
GTGCCACCAACTCATGTAGGCTTCGAAGGAAAAGGTGCCCTGCTCTTTGAGCACTAAAGGGTGAA
AGGAGAGAGCATCTTGCTTTTTA
Found at i:850563 original size:184 final size:185
Alignment explanation
Indices: 850231--850614 Score: 553
Period size: 184 Copynumber: 2.1 Consensus size: 185
850221 GAGAGCATCT
* * *
850231 TGCTTTTTAAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAGAAAAGGCGTCCTG
1 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTTATGTGGGCTTTGAAAAGAGAAAAGGCGTCCTG
* * *
850296 CTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAGGAGAAGGCATCCTGCTCTT
66 CTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAGGAAAAGGCATCCTACTCTT
* * *
850361 TGAGAACTAAAGGGTGCCACCAACTTGTGTAGGCTTT-AAAAGGAAAAGGCTTCC
131 TGAGAACTAAAGGGTGCCACCAACTGGTGTAGGCTTTGAAAAGAAAAAGGCGTCC
* *
850415 TGCTCTTTGAGGACTAAAGGGTGCCACCAACTTATGTGGGCTTTG-AAAG-GAAAAGGTG-CCGT
1 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTTATGTGGGCTTTGAAAAGAGAAAAGGCGTCC-T
*
850477 GCTCTTTGAGGACTAGAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCATCCTAC
65 GCTCTTTGAGGACT--AAAAAGTGCCACCAACTCGTGTGGGCTTTG-AAGGAAAAGGCATCCTAC
* * *
850542 TCTTTGAGGACTAAA-GGTGCCACCAACTGGTGTGGGTTTTGAAAAGAAAAAGGCGTCC
127 TCTTTGAGAACTAAAGGGTGCCACCAACTGGTGTAGGCTTTGAAAAGAAAAAGGCGTCC
*
850600 TACTCTTTGAGGACT
1 TGCTCTTTGAGGACT
850615 GGAAGGGCTA
Statistics
Matches: 179, Mismatches: 16, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
181 2 0.01
182 23 0.13
183 4 0.02
184 91 0.51
185 59 0.33
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (185 bp):
TGCTCTTTGAGGACTAAAAGGTGCCACCAACTTATGTGGGCTTTGAAAAGAGAAAAGGCGTCCTG
CTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAGGAAAAGGCATCCTACTCTT
TGAGAACTAAAGGGTGCCACCAACTGGTGTAGGCTTTGAAAAGAAAAAGGCGTCC
Found at i:851339 original size:16 final size:16
Alignment explanation
Indices: 851318--851371 Score: 53
Period size: 16 Copynumber: 3.6 Consensus size: 16
851308 TGGTTCATTT
851318 TTGACAAAACGTTAGC
1 TTGACAAAACGTTAGC
*
851334 TTGACAAAA----AGG
1 TTGACAAAACGTTAGC
*
851346 GTGAACAAAACGTTAGC
1 TTG-ACAAAACGTTAGC
851363 TTGACAAAA
1 TTGACAAAA
851372 AGGGTGAACA
Statistics
Matches: 29, Mismatches: 4, Indels: 10
0.67 0.09 0.23
Matches are distributed among these distances:
12 4 0.14
13 6 0.21
16 15 0.52
17 4 0.14
ACGTcount: A:0.44, C:0.15, G:0.20, T:0.20
Consensus pattern (16 bp):
TTGACAAAACGTTAGC
Found at i:851363 original size:29 final size:29
Alignment explanation
Indices: 851321--851386 Score: 132
Period size: 29 Copynumber: 2.3 Consensus size: 29
851311 TTCATTTTTG
851321 ACAAAACGTTAGCTTGACAAAAAGGGTGA
1 ACAAAACGTTAGCTTGACAAAAAGGGTGA
851350 ACAAAACGTTAGCTTGACAAAAAGGGTGA
1 ACAAAACGTTAGCTTGACAAAAAGGGTGA
851379 ACAAAACG
1 ACAAAACG
851387 GTTTGATGAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.47, C:0.15, G:0.23, T:0.15
Consensus pattern (29 bp):
ACAAAACGTTAGCTTGACAAAAAGGGTGA
Found at i:856845 original size:51 final size:51
Alignment explanation
Indices: 856775--856908 Score: 144
Period size: 51 Copynumber: 2.6 Consensus size: 51
856765 AATTTAATAT
* * *
856775 TTTAGAGATAATAAC-GGGGTTGGAGTATCCCCAATTGTGGAAAATTGATGA
1 TTTAGAAATAA-AACAGGGGTTGGAGTATCCCCAATTATGAAAAATTGATGA
** * * * *
856826 TTTAGAAATAAGGCAGGGGTTGAAGTGTCCCCGATTATGAAAAATTGATGT
1 TTTAGAAATAAAACAGGGGTTGGAGTATCCCCAATTATGAAAAATTGATGA
* * *
856877 TTTAGATATAAAACCGAGGTTGGAGTATCCCC
1 TTTAGAAATAAAACAGGGGTTGGAGTATCCCC
856909 TCAGAAATAA
Statistics
Matches: 66, Mismatches: 16, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
50 1 0.02
51 65 0.98
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (51 bp):
TTTAGAAATAAAACAGGGGTTGGAGTATCCCCAATTATGAAAAATTGATGA
Found at i:856967 original size:79 final size:78
Alignment explanation
Indices: 856842--857018 Score: 205
Period size: 79 Copynumber: 2.2 Consensus size: 78
856832 AATAAGGCAG
* * * * * * *
856842 GGGTTGAAGTGTCCCCGATTATGAAAAATTGATGTTTTAGATATAAAACCGAG-GTTGGAGTATC
1 GGGTTGGAGTATCCCCGATTATGAAAAATTAATATTATAGAAATAAAACCG-GCATTGGAGTATC
856906 CCCTC-AGAAATAAC
65 CCCTCGA-AAATAAC
* * **
856920 GCGGTTGGAGTATCCCTGATTATGAGAAATTAATATTATAGAAATAAAGTCGGCATTGGAGTATC
1 G-GGTTGGAGTATCCCCGATTATGAAAAATTAATATTATAGAAATAAAACCGGCATTGGAGTATC
856985 CCCTCGAAAATAAC
65 CCCTCGAAAATAAC
856999 GGGATTGGAGTATCCCCGAT
1 GGG-TTGGAGTATCCCCGAT
857019 GACATAACTG
Statistics
Matches: 83, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
78 4 0.05
79 78 0.94
80 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.28
Consensus pattern (78 bp):
GGGTTGGAGTATCCCCGATTATGAAAAATTAATATTATAGAAATAAAACCGGCATTGGAGTATCC
CCTCGAAAATAAC
Found at i:857086 original size:107 final size:107
Alignment explanation
Indices: 856896--857121 Score: 282
Period size: 107 Copynumber: 2.1 Consensus size: 107
856886 AAAACCGAGG
* *
856896 TTGGAGTATCCCCTCAGAAATAACGCGGTTGGAGTATCCCTGATTATGAGAAATTAATATTATAG
1 TTGGAGTATCCCCTCAGAAATAACGCGGTTGGAGTATCCCTGATTATGAAAAATCAATATTATAG
*
856961 AAATAAAGTCGGCATTGGAGTATCCCCT-CGAAAATAACGGGA
66 AAATAAAGCCGGCATTGGAGTATCCCCTCCG-AAATAACGGGA
* * *
857003 TTGGAGTATCCCC-GATGACATAACTG-GGTTGGAGTA-CCCTCGATTATGAAAAATCAATATTT
1 TTGGAGTATCCCCTCA-GAAATAAC-GCGGTTGGAGTATCCCT-GATTATGAAAAATCAATATTA
* * * *
857065 TAGATATAAAGCCAGG-GTTGGAGTATCCCCTCCGAAATAATGGGG
63 TAGAAATAAAGCC-GGCATTGGAGTATCCCCTCCGAAATAACGGGA
857110 TTGGAGTATCCC
1 TTGGAGTATCCC
857122 TGTTTATGAA
Statistics
Matches: 104, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
106 5 0.05
107 94 0.90
108 5 0.05
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (107 bp):
TTGGAGTATCCCCTCAGAAATAACGCGGTTGGAGTATCCCTGATTATGAAAAATCAATATTATAG
AAATAAAGCCGGCATTGGAGTATCCCCTCCGAAATAACGGGA
Found at i:857173 original size:82 final size:80
Alignment explanation
Indices: 857022--857207 Score: 227
Period size: 82 Copynumber: 2.3 Consensus size: 80
857012 CCCCGATGAC
* * *
857022 ATAACTGGGTTGGAGTA-CCCTCGATTATGAAAAATCAATATTTTAGATATAAAGCCAGGGTTGG
1 ATAACGGGGTTGGAGTATCCCTCGATTATGAAAAAACAACATTTTAGATATAAAGCCAGGGTTGG
857086 AGTATCCCCTCCG-AA
66 AGTAT-CCCTCCGAAA
* * * *
857101 ATAATGGGGTTGGAGTATCCCT-GTTTATGAAAAAAAACAACATTTTTAGATATAAAGTCGGGGT
1 ATAACGGGGTTGGAGTATCCCTCGATTATG--AAAAAACAACA-TTTTAGATATAAAGCCAGGGT
* *
857165 TGGAGTATCCTTTCGAAA
63 TGGAGTATCCCTCCGAAA
857183 ATAACGGGGTTGGAGTATCCC-CGAT
1 ATAACGGGGTTGGAGTATCCCTCGAT
857208 GAAATAACGG
Statistics
Matches: 90, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
79 21 0.23
80 4 0.04
81 14 0.16
82 51 0.57
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (80 bp):
ATAACGGGGTTGGAGTATCCCTCGATTATGAAAAAACAACATTTTAGATATAAAGCCAGGGTTGG
AGTATCCCTCCGAAA
Found at i:857199 original size:28 final size:27
Alignment explanation
Indices: 857159--857232 Score: 105
Period size: 28 Copynumber: 2.7 Consensus size: 27
857149 GATATAAAGT
*
857159 CGGGGTTGGAGTATCCTTTCGA-AAATAA
1 CGGGGTTGGAGTATCC--CCGAGAAATAA
857187 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGA-GAAATAA
857215 CGGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
857233 AATTGTGAAA
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
26 3 0.07
28 40 0.93
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.24
Consensus pattern (27 bp):
CGGGGTTGGAGTATCCCCGAGAAATAA
Found at i:857281 original size:189 final size:186
Alignment explanation
Indices: 856859--857243 Score: 486
Period size: 189 Copynumber: 2.1 Consensus size: 186
856849 AGTGTCCCCG
** * * *
856859 ATTATGAAAAATTGATGTTTTAGATATAAAACC-GAGGTTGGAGTATCCCCTCAGAAATAACGCG
1 ATTATGAAAAATCAATATTTTAGAAATAAAGCCAG-GGTTGGAGTATCCCCTCAGAAATAACGCG
* ** *
856923 GTTGGAGTATCCCTGATTATGAGAAATTAATATTATAGAAATAAAGTCGGCATTGGAGTATCCCC
65 GTTGGAGTATCCCTGATTATGAAAAAACAACATTATAGAAATAAAGTCGGCATTGGAGTATCCCC
* * *
856988 TCGAAAATAACGGGATTGGAGTATCCCCGATGACATAACTGGGTTGGAGTACCCTCG
130 TCGAAAATAACGGGATTGGAGTATCCCCGATGAAATAACGGGGTTGGAGTACCCTCA
* * * *
857045 ATTATGAAAAATCAATATTTTAGATATAAAGCCAGGGTTGGAGTATCCCCTCCGAAATAATGGGG
1 ATTATGAAAAATCAATATTTTAGAAATAAAGCCAGGGTTGGAGTATCCCCTCAGAAATAACGCGG
* * * **
857110 TTGGAGTATCCCTGTTTATGAAAAAAAACAACATTTTTAGATATAAAGTCGGGGTTGGAGTATCC
66 TTGGAGTATCCCTGATTATG--AAAAAACAACA-TTATAGAAATAAAGTCGGCATTGGAGTATCC
** *
857175 TTTCGAAAATAACGGGGTTGGAGTATCCCCGATGAAATAACGGGGTTGGAGTATCCC-CA
128 CCTCGAAAATAACGGGATTGGAGTATCCCCGATGAAATAACGGGGTTGGAGTA-CCCTCA
*
857234 ATTGTGAAAA
1 ATTATGAAAA
857244 CCTGGTGTTT
Statistics
Matches: 171, Mismatches: 23, Indels: 7
0.85 0.11 0.03
Matches are distributed among these distances:
186 75 0.44
187 1 0.01
188 7 0.04
189 85 0.50
190 3 0.02
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (186 bp):
ATTATGAAAAATCAATATTTTAGAAATAAAGCCAGGGTTGGAGTATCCCCTCAGAAATAACGCGG
TTGGAGTATCCCTGATTATGAAAAAACAACATTATAGAAATAAAGTCGGCATTGGAGTATCCCCT
CGAAAATAACGGGATTGGAGTATCCCCGATGAAATAACGGGGTTGGAGTACCCTCA
Found at i:859275 original size:33 final size:33
Alignment explanation
Indices: 859229--859329 Score: 175
Period size: 33 Copynumber: 3.1 Consensus size: 33
859219 TAGATTGTAA
*
859229 AATGTATCAATACAATGAGCAATGTATCGATAC
1 AATGTATCGATACAATGAGCAATGTATCGATAC
859262 AATGTATCGATACAATGAGCAATGTATCGATAC
1 AATGTATCGATACAATGAGCAATGTATCGATAC
* *
859295 AATGTATCGATACAATAAACAATGTATCGATAC
1 AATGTATCGATACAATGAGCAATGTATCGATAC
859328 AA
1 AA
859330 ATTGTGAAAA
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 65 1.00
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.27
Consensus pattern (33 bp):
AATGTATCGATACAATGAGCAATGTATCGATAC
Found at i:859284 original size:20 final size:20
Alignment explanation
Indices: 859229--859298 Score: 82
Period size: 20 Copynumber: 3.9 Consensus size: 20
859219 TAGATTGTAA
*
859229 AATGTATCAATACAATGAGC
1 AATGTATCGATACAATGAGC
859249 AATGTATCG-----AT-A-C
1 AATGTATCGATACAATGAGC
859262 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGAGC
859282 AATGTATCGATACAATG
1 AATGTATCGATACAATG
859299 TATCGATACA
Statistics
Matches: 42, Mismatches: 1, Indels: 14
0.74 0.02 0.25
Matches are distributed among these distances:
13 10 0.24
14 1 0.02
15 2 0.05
18 2 0.05
19 1 0.02
20 26 0.62
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.27
Consensus pattern (20 bp):
AATGTATCGATACAATGAGC
Found at i:859329 original size:13 final size:13
Alignment explanation
Indices: 859248--859310 Score: 84
Period size: 13 Copynumber: 5.3 Consensus size: 13
859238 ATACAATGAG
859248 CAATGTATCGATA
1 CAATGTATCGATA
859261 CAATGTATCGATA
1 CAATGTATCGATA
859274 CAATG-A--G---
1 CAATGTATCGATA
859281 CAATGTATCGATA
1 CAATGTATCGATA
859294 CAATGTATCGATA
1 CAATGTATCGATA
859307 CAAT
1 CAAT
859311 AAACAATGTA
Statistics
Matches: 44, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
7 5 0.11
8 1 0.02
10 2 0.05
12 1 0.02
13 35 0.80
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:862481 original size:20 final size:20
Alignment explanation
Indices: 862458--862530 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
862448 ACAATTCAAA
862458 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
862478 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
862499 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
862519 GTATCGATACAT
1 GTATCGATACAT
862531 AAAAAAGTTG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:862502 original size:21 final size:21
Alignment explanation
Indices: 862476--862551 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
862466 ACATGTTGCA
862476 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
862497 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
862517 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
*
862538 TTGTATCGATACAT
1 ATGTATCGATACAT
862552 TTCTTGGCAG
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:862509 original size:41 final size:41
Alignment explanation
Indices: 862458--862551 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
862448 ACAATTCAAA
*
862458 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
*
862499 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGTT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
862540 GTATCGATACAT
1 GTATCGATACAT
862552 TTCTTGGCAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:862608 original size:13 final size:13
Alignment explanation
Indices: 862590--862615 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
862580 TACAGCAAGT
862590 ATGTATCGATACA
1 ATGTATCGATACA
862603 ATGTATCGATACA
1 ATGTATCGATACA
862616 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:865965 original size:15 final size:15
Alignment explanation
Indices: 865945--865975 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
865935 TAAAAATGTC
*
865945 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
865960 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
865975 C
1 C
865976 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:868068 original size:20 final size:21
Alignment explanation
Indices: 867989--868067 Score: 72
Period size: 20 Copynumber: 3.7 Consensus size: 21
867979 AATGTCCAAA
*
867989 ATGTATCGATACATGTTTT-T
1 ATGTATCGATACATCTTTTCT
* *
868009 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACATCT----TTTCT
868034 ATGTATCGATACAT-TTTTCT
1 ATGTATCGATACATCTTTTCT
*
868054 TTGTATCGATACAT
1 ATGTATCGATACAT
868068 TGTATCGATA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
20 31 0.65
24 3 0.06
25 14 0.29
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.44
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTCT
Found at i:868072 original size:13 final size:13
Alignment explanation
Indices: 868054--868092 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
868044 ACATTTTTCT
868054 TTGTATCGATACA
1 TTGTATCGATACA
868067 TTGTATCGATACA
1 TTGTATCGATACA
*
868080 CTGTATCGATACA
1 TTGTATCGATACA
868093 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:869907 original size:23 final size:23
Alignment explanation
Indices: 869877--869923 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
869867 GTGCAAATAA
869877 ATTTTGATATGAATTACTTGATT
1 ATTTTGATATGAATTACTTGATT
869900 ATTTTGATATGAATTACTTGATT
1 ATTTTGATATGAATTACTTGATT
869923 A
1 A
869924 AGGGGGAGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.32, C:0.04, G:0.13, T:0.51
Consensus pattern (23 bp):
ATTTTGATATGAATTACTTGATT
Found at i:870583 original size:20 final size:20
Alignment explanation
Indices: 870560--870632 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
870550 ACAATTCAAA
870560 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
870580 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
870601 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
870621 GTATCGATACAT
1 GTATCGATACAT
870633 AAAAAAGTTG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:870604 original size:21 final size:21
Alignment explanation
Indices: 870578--870653 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
870568 ACATGTTGCA
870578 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
870599 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
870619 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
*
870640 TTGTATCGATACAT
1 ATGTATCGATACAT
870654 TTCTTGGCAG
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:870611 original size:41 final size:41
Alignment explanation
Indices: 870560--870653 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
870550 ACAATTCAAA
*
870560 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
*
870601 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGTT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
870642 GTATCGATACAT
1 GTATCGATACAT
870654 TTCTTGGCAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:870710 original size:13 final size:13
Alignment explanation
Indices: 870692--870717 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
870682 TACAGCAAGT
870692 ATGTATCGATACA
1 ATGTATCGATACA
870705 ATGTATCGATACA
1 ATGTATCGATACA
870718 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:878899 original size:42 final size:42
Alignment explanation
Indices: 878444--878946 Score: 481
Period size: 42 Copynumber: 12.0 Consensus size: 42
878434 ATTAAACTTT
* * * * * * * *
878444 TGGAGACTTTCCTTCCCTTAGTCAGCTTGTCAGCTTTAAGCA
1 TGGAGACTTTCCTACCCTCAGTCTGCCTGTCGGCTTTGACCC
* * *
878486 TGGAGACTTTCCTACCCTTAGTCTGCTTGTCGGCTTTGACCA
1 TGGAGACTTTCCTACCCTCAGTCTGCCTGTCGGCTTTGACCC
* * * *
878528 TGGAGATTTTCCTACCCTCAATCTGCCTGTCGACTTTGACCT
1 TGGAGACTTTCCTACCCTCAGTCTGCCTGTCGGCTTTGACCC
** * * * *
878570 TGGAGACTTTTTTTCCCTCAATCTACCTTTCGGCTTTGACCC
1 TGGAGACTTTCCTACCCTCAGTCTGCCTGTCGGCTTTGACCC
* * * ** *
878612 TGGAGACTTTCCTACCCTTAGTCTACTTGTTAGCTGTGACCC
1 TGGAGACTTTCCTACCCTCAGTCTGCCTGTCGGCTTTGACCC
* * * * *
878654 TAGAGACTTTCTTACCCTCAGTCTACTTGTCGACTTTGACCC
1 TGGAGACTTTCCTACCCTCAGTCTGCCTGTCGGCTTTGACCC
* * * * *
878696 TAGAGACTTTCCTACCCTCAGTCTACTTGTCGACTTGGACCC
1 TGGAGACTTTCCTACCCTCAGTCTGCCTGTCGGCTTTGACCC
* * * *
878738 TGGAGACTTCCCTACCCTCAGTCAGCCTGTTGACTTTGACCC
1 TGGAGACTTTCCTACCCTCAGTCTGCCTGTCGGCTTTGACCC
*
878780 TGGAGACTTT-CTACCCTCAGTCTGCCTGTCGGCTTTGACCT
1 TGGAGACTTTCCTACCCTCAGTCTGCCTGTCGGCTTTGACCC
* *
878821 TGGAGAC-TTCCTACCCTTAGTCTGCCTGTCGGCTTTGACCT
1 TGGAGACTTTCCTACCCTCAGTCTGCCTGTCGGCTTTGACCC
* * * * *
878862 TGGAGACTTTTCTACCCTTAGTCTGCCTATCAGCTTTGACTC
1 TGGAGACTTTCCTACCCTCAGTCTGCCTGTCGGCTTTGACCC
* * * * * *
878904 TAGAGACTTTTCC-ACTCTTAGTCTTCCTGTTGGATTTGACCC
1 TGGAGAC-TTTCCTACCCTCAGTCTGCCTGTCGGCTTTGACCC
878946 T
1 T
878947 TAGTCTGCCT
Statistics
Matches: 393, Mismatches: 65, Indels: 6
0.85 0.14 0.01
Matches are distributed among these distances:
40 2 0.01
41 71 0.18
42 316 0.80
43 4 0.01
ACGTcount: A:0.16, C:0.30, G:0.18, T:0.36
Consensus pattern (42 bp):
TGGAGACTTTCCTACCCTCAGTCTGCCTGTCGGCTTTGACCC
Found at i:878957 original size:25 final size:25
Alignment explanation
Indices: 878920--878967 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
878910 CTTTTCCACT
*
878920 CTTAGTCTTCCTGTTGGATTTGACC
1 CTTAGTCTGCCTGTTGGATTTGACC
*
878945 CTTAGTCTGCCTGTTGGCTTTGA
1 CTTAGTCTGCCTGTTGGATTTGA
878968 ACCTAGAGAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.10, C:0.23, G:0.23, T:0.44
Consensus pattern (25 bp):
CTTAGTCTGCCTGTTGGATTTGACC
Found at i:879019 original size:44 final size:43
Alignment explanation
Indices: 878962--879184 Score: 161
Period size: 43 Copynumber: 5.2 Consensus size: 43
878952 TGCCTGTTGG
* * * *
878962 CTTTGAACC-TAGAGACTTTTCTATCCTGAAAGTTTTCCTGTGGG
1 CTTTG-ACCTTAGAGACTTTCCTATCCT-TAAGTTTTCCTGTCGA
* *
879006 CTTTGACCTTAGAGACTTTCCTGTCCATTAA-TCTTT-CGGTCGA
1 CTTTGACCTTAGAGACTTTCCTATCC-TTAAGT-TTTCCTGTCGA
* * * *
879049 CTTTGACCTTGGAGACTTTCCTATCTTTCAGTTTGCCTGTCGA
1 CTTTGACCTTAGAGACTTTCCTATCCTTAAGTTTTCCTGTCGA
* * * * * * *
879092 CTTTGACCTTGGAGACTTTTCTATCCCTCAGTCTCCCTGTCGG
1 CTTTGACCTTAGAGACTTTCCTATCCTTAAGTTTTCCTGTCGA
* * * *
879135 CTTTGACCTT-GAAGA-TTGCCTAAT-CTAAAGTTTGCCTGTCGG
1 CTTTGACCTTAG-AGACTTTCCT-ATCCTTAAGTTTTCCTGTCGA
879177 CTTTGACC
1 CTTTGACC
879185 CAAAAGAATC
Statistics
Matches: 147, Mismatches: 25, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
42 31 0.21
43 90 0.61
44 25 0.17
45 1 0.01
ACGTcount: A:0.17, C:0.26, G:0.19, T:0.39
Consensus pattern (43 bp):
CTTTGACCTTAGAGACTTTCCTATCCTTAAGTTTTCCTGTCGA
Found at i:879684 original size:20 final size:20
Alignment explanation
Indices: 879661--879727 Score: 98
Period size: 20 Copynumber: 3.3 Consensus size: 20
879651 ATCAAAAATT
879661 AAAAAATCAAAATAAAAGTA
1 AAAAAATCAAAATAAAAGTA
* *
879681 AAAAAATCAAAATCAAAAATT
1 AAAAAATCAAAAT-AAAAGTA
*
879702 AAAAAATAAAAATAAAAGTA
1 AAAAAATCAAAATAAAAGTA
879722 AAAAAA
1 AAAAAA
879728 AAATCATCAT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
20 24 0.59
21 17 0.41
ACGTcount: A:0.78, C:0.04, G:0.03, T:0.15
Consensus pattern (20 bp):
AAAAAATCAAAATAAAAGTA
Found at i:879686 original size:14 final size:13
Alignment explanation
Indices: 879669--879727 Score: 57
Period size: 14 Copynumber: 4.3 Consensus size: 13
879659 TTAAAAAATC
879669 AAAATAAAAGTAAA
1 AAAATAAAA-TAAA
*
879683 AAAATCAAAATCAA
1 AAAAT-AAAATAAA
*
879697 AAATTAAAA-AATA
1 AAAATAAAATAA-A
879710 AAAATAAAAGTAAA
1 AAAATAAAA-TAAA
879724 AAAA
1 AAAA
879728 AAATCATCAT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
12 1 0.03
13 13 0.35
14 17 0.46
15 6 0.16
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.15
Consensus pattern (13 bp):
AAAATAAAATAAA
Found at i:879695 original size:41 final size:41
Alignment explanation
Indices: 879649--879727 Score: 149
Period size: 41 Copynumber: 1.9 Consensus size: 41
879639 TAATAAGTAG
*
879649 AAATCAAAAATTAAAAAATCAAAATAAAAGTAAAAAAATCA
1 AAATCAAAAATTAAAAAATAAAAATAAAAGTAAAAAAATCA
879690 AAATCAAAAATTAAAAAATAAAAATAAAAGTAAAAAAA
1 AAATCAAAAATTAAAAAATAAAAATAAAAGTAAAAAAA
879728 AAATCATCAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.76, C:0.05, G:0.03, T:0.16
Consensus pattern (41 bp):
AAATCAAAAATTAAAAAATAAAAATAAAAGTAAAAAAATCA
Found at i:879725 original size:7 final size:6
Alignment explanation
Indices: 879662--879731 Score: 52
Period size: 6 Copynumber: 11.0 Consensus size: 6
879652 TCAAAAATTA
* * *
879662 AAAAAT CAAAAT AAAAGTAA AAAAAT CAAAAT CAAAAATT AAAAAAT AAAAAT
1 AAAAAT AAAAAT AAAA--AT AAAAAT AAAAAT -AAAAA-T -AAAAAT AAAAAT
*
879715 AAAAGT AAAAA- AAAAAT
1 AAAAAT AAAAAT AAAAAT
879732 CATCATTAAA
Statistics
Matches: 50, Mismatches: 9, Indels: 10
0.72 0.13 0.14
Matches are distributed among these distances:
5 5 0.10
6 29 0.58
7 5 0.10
8 11 0.22
ACGTcount: A:0.77, C:0.04, G:0.03, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:880387 original size:21 final size:21
Alignment explanation
Indices: 880358--880397 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
880348 AGCATCCACC
*
880358 AGCAACAGCTTCCACGAACAT
1 AGCAACAGCATCCACGAACAT
* *
880379 AGCAGCAGCATCCATGAAC
1 AGCAACAGCATCCACGAAC
880398 CAGCAGCTCG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.33, G:0.17, T:0.12
Consensus pattern (21 bp):
AGCAACAGCATCCACGAACAT
Found at i:880457 original size:21 final size:21
Alignment explanation
Indices: 880424--880467 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
880414 TTCCAGCTTC
*
880424 CACAACAGTAGCTTCCATGAG
1 CACAACAGCAGCTTCCATGAG
* *
880445 CACAGCAGCAGCTTTCATGAG
1 CACAACAGCAGCTTCCATGAG
880466 CA
1 CA
880468 ATCGACCGCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.32, C:0.30, G:0.20, T:0.18
Consensus pattern (21 bp):
CACAACAGCAGCTTCCATGAG
Found at i:887638 original size:28 final size:28
Alignment explanation
Indices: 887503--887981 Score: 422
Period size: 28 Copynumber: 16.5 Consensus size: 28
887493 TTAAAAAAAT
* *
887503 GTGCCACTAACTTGTGTGGGCTTTGAAAAAAG
1 GTGCCACTGAC-T-TGTGGGCTTTG--AAAGG
* *
887535 TTGCCACCGACTCGTGTGGGCTTTGAAAAGAG
1 GTGCCACTGACT--TGTGGGCTTTG-AAAG-G
* * * * * *
887567 TTACCATTGGCTTTTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTG-AAAGG
* * *
887596 GTGCCATTGACTTGTTGGCTTTAAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* *
887624 GTACCACTGATTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* *
887652 GTGCCACTGACTTATGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTG-AAAGG
887681 GTGCCACTGACTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* *
887709 GTGCTACTGACTTATGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* * *
887737 ATGCCACTGACTTGT-TGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTG-AAAGG
* *
887765 ATGCCACTGACTTGTGGGTTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
*
887793 GTGCCACTAACTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* ** * *
887821 ATGCCACTGACTCATGAGTTTTGAAAAGAG
1 GTGCCACTGACTTGTGGGCTTTG-AAAG-G
* * *
887851 TTGGCACTGACTCGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* *
887879 ATGCCACTGACTTGTGAGCTTTGAAAAGAG
1 GTGCCACTGACTTGTGGGCTTTG-AAAG-G
* *
887909 TTGCCA-TCGACTCGTGTGGGCTTTGAAAAGA
1 GTGCCACT-GACT--TGTGGGCTTTG-AAAGG
*
887940 GTGCCACTGACTTGTAGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
*
887968 GTACCACTGACTTG
1 GTGCCACTGACTTG
887982 AAGTCTTACC
Statistics
Matches: 371, Mismatches: 63, Indels: 30
0.80 0.14 0.06
Matches are distributed among these distances:
27 6 0.02
28 191 0.51
29 71 0.19
30 44 0.12
31 14 0.04
32 45 0.12
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (28 bp):
GTGCCACTGACTTGTGGGCTTTGAAAGG
Found at i:887679 original size:85 final size:85
Alignment explanation
Indices: 887503--887981 Score: 521
Period size: 85 Copynumber: 5.5 Consensus size: 85
887493 TTAAAAAAAT
* * * * *
887503 GTGCCACTAACTTGTGTGGGCTTTGAAAAAAGTTGCCACCGACTCGTGTGGGCTTTGAAAAGAGT
1 GTGCCACTGAC-T-TGTGGGCTTTG--AAAGGGTGCCACTGACT--TGTGGGCTTTG-AAAG-GA
* * * *
887568 TACCATTGGCTTTTGGGCTTTGAAAAGA
58 TGCCACTGACTTATGGGCTTTGAAAAGA
* * * * * *
887596 GTGCCATTGACTTGTTGGCTTTAAAAGGGTACCACTGATTTGTGGGCTTTGAAAGGGTGCCACTG
1 GTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTG
887661 ACTTATGGGCTTTGAAAAGA
66 ACTTATGGGCTTTGAAAAGA
* *
887681 GTGCCACTGACTTGTGGGCTTTGAAAGGGTGCTACTGACTTATGGGCTTTGAAAGGATGCCACTG
1 GTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTG
* *
887746 ACTTGT-TGCTTTGAAAAGA
66 ACTTATGGGCTTTGAAAAGA
* * *
887765 ATGCCACTGACTTGTGGGTTTTGAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTG
1 GTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTG
* * *
887830 ACTCATGAGTTTTGAAAAGA
66 ACTTATGGGCTTTGAAAAGA
* * * * *
887850 GTTGGCACTGACTCGTGGGCTTTGAAAGGATGCCACTGACTTGTGAGCTTTGAAAAGAGTTGCCA
1 G-TGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTG-AAAG-GATGCCA
*
887915 -TCGACTCGTGTGGGCTTTGAAAAGA
63 CT-GACT--TATGGGCTTTGAAAAGA
* *
887940 GTGCCACTGACTTGTAGGCTTTGAAAGGGTACCACTGACTTG
1 GTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTG
887982 AAGTCTTACC
Statistics
Matches: 329, Mismatches: 50, Indels: 18
0.83 0.13 0.05
Matches are distributed among these distances:
84 76 0.23
85 98 0.30
86 48 0.15
87 16 0.05
88 10 0.03
89 48 0.15
90 14 0.04
91 9 0.03
92 1 0.00
93 9 0.03
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (85 bp):
GTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTG
ACTTATGGGCTTTGAAAAGA
Found at i:889122 original size:1 final size:1
Alignment explanation
Indices: 889116--889219 Score: 55
Period size: 1 Copynumber: 104.0 Consensus size: 1
889106 CTATTTCTAC
* * ** * ** * * * * *
889116 TTTTTTTGTTTTTTTTCTTGGTTTTTTTCTACTTTTTTGTTATTTTTTGTTATTTTTTTGTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * *
889181 TTTGTTTTTTGTTTTTTTGTTTTTTTGTTTGTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
889220 GGTATGAAAG
Statistics
Matches: 72, Mismatches: 31, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
1 72 1.00
ACGTcount: A:0.03, C:0.03, G:0.11, T:0.84
Consensus pattern (1 bp):
T
Found at i:889142 original size:21 final size:21
Alignment explanation
Indices: 889116--889222 Score: 85
Period size: 22 Copynumber: 5.0 Consensus size: 21
889106 CTATTTCTAC
*
889116 TTTTTTTGTTTTTTTTCTTGG
1 TTTTTTTGTTTTTTTTTTTGG
* * *
889137 TTTTTTTCTACTTTTTTGTT--
1 TTTTTTTGT-TTTTTTTTTTGG
* * *
889157 ATTTTTTG-TTATTTTTTTGT
1 TTTTTTTGTTTTTTTTTTTGG
*
889177 TTTTTTTGTTTTTTGTTTTTTTG
1 TTTTTTTG-TTTTT-TTTTTTGG
889200 TTTTTTTGTTTGTTTTTTTTGG
1 TTTTTTTGTTT-TTTTTTTTGG
889222 T
1 T
889223 ATGAAAGACG
Statistics
Matches: 66, Mismatches: 13, Indels: 13
0.72 0.14 0.14
Matches are distributed among these distances:
18 7 0.11
20 13 0.20
21 8 0.12
22 22 0.33
23 16 0.24
ACGTcount: A:0.03, C:0.03, G:0.12, T:0.82
Consensus pattern (21 bp):
TTTTTTTGTTTTTTTTTTTGG
Found at i:889219 original size:16 final size:15
Alignment explanation
Indices: 889168--889219 Score: 77
Period size: 16 Copynumber: 3.3 Consensus size: 15
889158 TTTTTTGTTA
889168 TTTTTTTGTTTTTTT
1 TTTTTTTGTTTTTTT
889183 TGTTTTTTGTTTTTTT
1 T-TTTTTTGTTTTTTT
*
889199 GTTTTTTTGTTTGTTT
1 -TTTTTTTGTTTTTTT
889215 TTTTT
1 TTTTT
889220 GGTATGAAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
15 6 0.18
16 27 0.79
17 1 0.03
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (15 bp):
TTTTTTTGTTTTTTT
Found at i:903165 original size:20 final size:20
Alignment explanation
Indices: 903140--903191 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
903130 TACAAGCCAA
**
903140 TGTATCGATACAATTTTTTG
1 TGTATCGATACAATACTTTG
903160 TGTATCGATAC-ATACTTTG
1 TGTATCGATACAATACTTTG
903179 TGTATCGATACAA
1 TGTATCGATACAA
903192 GTTTGGCTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.42
Consensus pattern (20 bp):
TGTATCGATACAATACTTTG
Found at i:903266 original size:20 final size:20
Alignment explanation
Indices: 903221--903294 Score: 76
Period size: 20 Copynumber: 3.6 Consensus size: 20
903211 ATCCCAATGA
***
903221 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGAAT
*
903242 CATGTATCGATACATTGCAT
1 CATGTATCGATACATTGAAT
*
903262 CATGTATCGATACTTTGAAT
1 CATGTATCGATACATTGAAT
**
903282 TGTGTATCGATAC
1 CATGTATCGATAC
903295 TTTTAAGGGT
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
20 31 0.67
21 15 0.33
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.41
Consensus pattern (20 bp):
CATGTATCGATACATTGAAT
Found at i:903295 original size:20 final size:20
Alignment explanation
Indices: 903241--903297 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
903231 TACATCTTTT
* *
903241 TCATGTATCGATACATTGCA
1 TCATGTATCGATACTTTGAA
903261 TCATGTATCGATACTTTGAA
1 TCATGTATCGATACTTTGAA
**
903281 TTGTGTATCGATACTTT
1 TCATGTATCGATACTTT
903298 TAAGGGTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.42
Consensus pattern (20 bp):
TCATGTATCGATACTTTGAA
Found at i:905567 original size:23 final size:24
Alignment explanation
Indices: 905522--905568 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
905512 CAAAGAATTG
*
905522 AACACAAATTCAATTAAGTACAAA
1 AACACAAATTCAATTAAGAACAAA
905546 AACACAAA-TCAATTGAA-AACAAA
1 AACACAAATTCAATT-AAGAACAAA
905569 TTTTCAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.62, C:0.17, G:0.04, T:0.17
Consensus pattern (24 bp):
AACACAAATTCAATTAAGAACAAA
Found at i:906960 original size:21 final size:21
Alignment explanation
Indices: 906936--906977 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
906926 ATCCATTTCT
* *
906936 TCATTTTCATCAACCTCTTGA
1 TCATCTTCATCAACATCTTGA
*
906957 TCATCTTCATCATCATCTTGA
1 TCATCTTCATCAACATCTTGA
906978 ACGGTTGATT
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:0.24, C:0.29, G:0.05, T:0.43
Consensus pattern (21 bp):
TCATCTTCATCAACATCTTGA
Found at i:908615 original size:13 final size:13
Alignment explanation
Indices: 908597--908622 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
908587 CAATTTTTTG
908597 TGTATCGATACAT
1 TGTATCGATACAT
908610 TGTATCGATACAT
1 TGTATCGATACAT
908623 ACTTTGTGTA
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:908634 original size:32 final size:33
Alignment explanation
Indices: 908577--908640 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
908567 TACAAGCCAA
**
908577 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
908610 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
908641 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:908717 original size:20 final size:20
Alignment explanation
Indices: 908692--908744 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
908682 ACATCTTTTT
908692 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
*
908712 CATGTATCGATACATTGCAT
1 CATGTATCGATACATTGCAA
908732 CATGTATCGATAC
1 CATGTATCGATAC
908745 TTTGAATTGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (20 bp):
CATGTATCGATACATTGCAA
Found at i:908757 original size:20 final size:20
Alignment explanation
Indices: 908691--908767 Score: 93
Period size: 20 Copynumber: 3.9 Consensus size: 20
908681 TACATCTTTT
*
908691 TCATGTATCGATACATTGCAA
1 TCATGTATCGATACTTTG-AA
* *
908712 -CATGTATCGATACATTGCA
1 TCATGTATCGATACTTTGAA
908731 TCATGTATCGATACTTTGAA
1 TCATGTATCGATACTTTGAA
**
908751 TTGTGTATCGATACTTT
1 TCATGTATCGATACTTT
908768 TAAGGGTTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
19 1 0.02
20 49 0.98
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.39
Consensus pattern (20 bp):
TCATGTATCGATACTTTGAA
Found at i:911744 original size:20 final size:21
Alignment explanation
Indices: 911719--911757 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
911709 GTTTTCCAGA
911719 ATGTATCGATACAT-TGAAGG
1 ATGTATCGATACATCTGAAGG
911739 ATGTATCGATACATCTGAA
1 ATGTATCGATACATCTGAA
911758 AAACCAAGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.31
Consensus pattern (21 bp):
ATGTATCGATACATCTGAAGG
Found at i:913682 original size:21 final size:20
Alignment explanation
Indices: 913656--913705 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
913646 TTTTAACCGA
*
913656 TTATCAAGGGGAGAAAATTTT
1 TTATCAAGAGG-GAAAATTTT
913677 TTATCAA-AGGGAAAATTTT
1 TTATCAAGAGGGAAAATTTT
*
913696 TTAACAAGAG
1 TTATCAAGAG
913706 CCTTAATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 15 0.58
20 4 0.15
21 7 0.27
ACGTcount: A:0.42, C:0.06, G:0.20, T:0.32
Consensus pattern (20 bp):
TTATCAAGAGGGAAAATTTT
Found at i:914273 original size:20 final size:20
Alignment explanation
Indices: 914250--914314 Score: 81
Period size: 20 Copynumber: 3.6 Consensus size: 20
914240 CACACCCAGA
914250 TGTATCGATACATTATGCAT
1 TGTATCGATACATTATGCAT
914270 TGTATCGATAC---A-G---
1 TGTATCGATACATTATGCAT
914283 TGTATCGATACATTATGCAT
1 TGTATCGATACATTATGCAT
914303 TGTATCGATACA
1 TGTATCGATACA
914315 GTGTATCGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 11 0.29
16 2 0.05
17 2 0.05
20 23 0.61
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (20 bp):
TGTATCGATACATTATGCAT
Found at i:914288 original size:13 final size:13
Alignment explanation
Indices: 914270--914327 Score: 65
Period size: 13 Copynumber: 4.9 Consensus size: 13
914260 CATTATGCAT
914270 TGTATCGATACAG
1 TGTATCGATACAG
914283 TGTATCGATACA-
1 TGTATCGATACAG
*
914295 T-TAT-G---CAT
1 TGTATCGATACAG
914303 TGTATCGATACAG
1 TGTATCGATACAG
914316 TGTATCGATACA
1 TGTATCGATACA
914328 TGTTCATTGT
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
7 2 0.05
8 1 0.03
9 3 0.08
10 2 0.05
11 3 0.08
12 1 0.03
13 26 0.68
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:914292 original size:33 final size:33
Alignment explanation
Indices: 914250--914346 Score: 171
Period size: 33 Copynumber: 3.0 Consensus size: 33
914240 CACACCCAGA
914250 TGTATCGATACATTATGCATTGTATCGATACAG
1 TGTATCGATACATTATGCATTGTATCGATACAG
914283 TGTATCGATACATTATGCATTGTATCGATACAG
1 TGTATCGATACATTATGCATTGTATCGATACAG
914316 TGTATCGATACATGT-T-CATTGTATCGATACA
1 TGTATCGATACAT-TATGCATTGTATCGATACA
914347 TGGACAATTG
Statistics
Matches: 63, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
32 15 0.24
33 47 0.75
34 1 0.02
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.37
Consensus pattern (33 bp):
TGTATCGATACATTATGCATTGTATCGATACAG
Found at i:914340 original size:19 final size:20
Alignment explanation
Indices: 914316--914364 Score: 73
Period size: 19 Copynumber: 2.5 Consensus size: 20
914306 ATCGATACAG
**
914316 TGTATCGATACATGTTC-AT
1 TGTATCGATACATGGACAAT
914335 TGTATCGATACATGGACAAT
1 TGTATCGATACATGGACAAT
914355 TGTATCGATA
1 TGTATCGATA
914365 TATGAAACTG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 15 0.56
20 12 0.44
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.37
Consensus pattern (20 bp):
TGTATCGATACATGGACAAT
Found at i:915179 original size:19 final size:18
Alignment explanation
Indices: 915154--915250 Score: 97
Period size: 19 Copynumber: 5.8 Consensus size: 18
915144 ATTTCAACGA
915154 TTTGTATCGATACATAAG
1 TTTGTATCGATACATAAG
915172 TGTTGTATCGATAC---A-
1 T-TTGTATCGATACATAAG
915187 -TTGTATCGATACATAAG
1 TTTGTATCGATACATAAG
915204 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
915220 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
915236 TTTTGTATCGATACA
1 -TTTGTATCGATACA
915251 ATGTATCGCT
Statistics
Matches: 66, Mismatches: 0, Indels: 25
0.73 0.00 0.27
Matches are distributed among these distances:
13 23 0.35
15 2 0.03
16 2 0.03
17 2 0.03
18 1 0.02
19 36 0.55
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:915191 original size:32 final size:32
Alignment explanation
Indices: 915156--915258 Score: 188
Period size: 32 Copynumber: 3.2 Consensus size: 32
915146 TTCAACGATT
*
915156 TGTATCGATACATAAGTGTTGTATCGATACAT
1 TGTATCGATACATAAGTGTTGTATCGATACAA
915188 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
915220 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
915252 TGTATCG
1 TGTATCG
915259 CTACGAAGCT
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 69 1.00
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:915192 original size:13 final size:13
Alignment explanation
Indices: 915174--915232 Score: 55
Period size: 13 Copynumber: 4.1 Consensus size: 13
915164 TACATAAGTG
915174 TTGTATCGATACA
1 TTGTATCGATACA
915187 TTGTATCGATACATAA
1 TTGTATCGATAC---A
915203 GTGTTGTATCGATACA
1 ---TTGTATCGATACA
*
915219 ATGTATCGATACA
1 TTGTATCGATACA
915232 T
1 T
915233 AAGTTTTGTA
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
13 24 0.63
16 2 0.05
19 12 0.32
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:915378 original size:52 final size:52
Alignment explanation
Indices: 915336--915457 Score: 208
Period size: 52 Copynumber: 2.3 Consensus size: 52
915326 CACTGATCTT
* *
915336 TGTATCGATACCTGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
*
915388 TGTATCGATATATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
*
915440 TGTATCGATACATGCAGG
1 TGTATCGATACATACAGG
915458 AAAAATTTTA
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
Found at i:922365 original size:25 final size:25
Alignment explanation
Indices: 922336--922406 Score: 72
Period size: 25 Copynumber: 2.8 Consensus size: 25
922326 AAAAATGATG
**
922336 AAAAAGTCAAAAGTAAAC-ACATAAA
1 AAAAAGT-AAAAAAAAACAACATAAA
*
922361 CAAAAGTAAAAAAAAACAACATAAA
1 AAAAAGTAAAAAAAAACAACATAAA
*
922386 AAAAAATAAAAACAAGAACAA
1 AAAAAGTAAAAA-AA-AACAA
922407 AAAAATACAC
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
24 8 0.21
25 23 0.61
26 2 0.05
27 5 0.13
ACGTcount: A:0.75, C:0.11, G:0.06, T:0.08
Consensus pattern (25 bp):
AAAAAGTAAAAAAAAACAACATAAA
Found at i:922396 original size:21 final size:20
Alignment explanation
Indices: 922368--922413 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
922358 AAACAAAAGT
922368 AAAA-AAAAACAACATAAAAA
1 AAAATAAAAACAACA-AAAAA
* *
922388 AAAATAAAAACAAGAACAAA
1 AAAATAAAAACAACAAAAAA
922408 AAAATA
1 AAAATA
922414 CACAAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 14 0.61
21 9 0.39
ACGTcount: A:0.83, C:0.09, G:0.02, T:0.07
Consensus pattern (20 bp):
AAAATAAAAACAACAAAAAA
Found at i:922680 original size:1 final size:1
Alignment explanation
Indices: 922674--922739 Score: 51
Period size: 1 Copynumber: 66.0 Consensus size: 1
922664 TTCTTTTCCC
* * * * * * * * *
922674 AAAAAAAAACAAAAAAAAACAAAAAAAAAACAAACAAACAAACAAACAAAAAAAAAGAAAGAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
922739 A
1 A
922740 CCCCTTTTCA
Statistics
Matches: 47, Mismatches: 18, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 47 1.00
ACGTcount: A:0.86, C:0.11, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Done.