Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009592.1 Hibiscus syriacus cultivar Beakdansim tig00116971_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 7920512
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 39
Found at i:664537 original size:55 final size:55
Alignment explanation
Indices: 664453--664785 Score: 445
Period size: 55 Copynumber: 6.1 Consensus size: 55
664443 AACAACCCCT
* ** * *
664453 ACTCATTATA-AATTCCATGGTTTTGCACACATAGTGCCGATACGGTAATTCATAA
1 ACTCATTA-AGAATTTCATGGGGTTGCACACATAGTGCCAATACGGAAATTCATAA
* * *
664508 ACTCATTAAGAATTACATGGGGTTGCACACATAATGCCAATACAGAAATTCATAA
1 ACTCATTAAGAATTTCATGGGGTTGCACACATAGTGCCAATACGGAAATTCATAA
* * * *
664563 ACTCATTATGAATTTCGTGGGGTTGCACATATAGTGCCAATACGGAAACTCATAA
1 ACTCATTAAGAATTTCATGGGGTTGCACACATAGTGCCAATACGGAAATTCATAA
* * *
664618 AATCATTAAGAATTTCATCGGGTTGCACACATAGTGCCAATACGAAAATTCATAA
1 ACTCATTAAGAATTTCATGGGGTTGCACACATAGTGCCAATACGGAAATTCATAA
* * * *
664673 ACTCATTATGAATTTCGTGAGGTTGCACACATAGTGCCAATACGGGAATTCATAA
1 ACTCATTAAGAATTTCATGGGGTTGCACACATAGTGCCAATACGGAAATTCATAA
* * *
664728 ACTCATTATGAATTTCGTGAGGTTGCACACATAGTGCCAATAC-GAAATTCATAA
1 ACTCATTAAGAATTTCATGGGGTTGCACACATAGTGCCAATACGGAAATTCATAA
664782 ACTC
1 ACTC
664786 GTTATCACTT
Statistics
Matches: 248, Mismatches: 29, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
54 15 0.06
55 233 0.94
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.29
Consensus pattern (55 bp):
ACTCATTAAGAATTTCATGGGGTTGCACACATAGTGCCAATACGGAAATTCATAA
Found at i:664754 original size:165 final size:164
Alignment explanation
Indices: 664475--664782 Score: 490
Period size: 165 Copynumber: 1.9 Consensus size: 164
664465 TTCCATGGTT
* ** *
664475 TTGCACACATAGTGCCGATACGGTAATTCATAAACTCATTAAGAATTACATGGGGTTGCACACAT
1 TTGCACACATAGTGCCAATACGAAAATTCATAAACTCATTAAGAATTACATGAGGTTGCACACAT
* *
664540 AATGCCAATACAGAAATTCATAAACTCATTATGAATTTCGTGGGGTTGCACATATAGTGCCAATA
66 AATGCCAATACAGAAATTCATAAACTCATTATGAATTTCGTGAGGTTGCACACATAGTGCCAATA
664605 CGGAAACTCATAAAATCATTAAGAATTTCATCGGG
131 C-GAAACTCATAAAATCATTAAGAATTTCATCGGG
* * *
664640 TTGCACACATAGTGCCAATACGAAAATTCATAAACTCATTATGAATTTCGTGAGGTTGCACACAT
1 TTGCACACATAGTGCCAATACGAAAATTCATAAACTCATTAAGAATTACATGAGGTTGCACACAT
* * *
664705 AGTGCCAATACGGGAATTCATAAACTCATTATGAATTTCGTGAGGTTGCACACATAGTGCCAATA
66 AATGCCAATACAGAAATTCATAAACTCATTATGAATTTCGTGAGGTTGCACACATAGTGCCAATA
*
664770 CGAAATTCATAAA
131 CGAAACTCATAAA
664783 CTCGTTATCA
Statistics
Matches: 130, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
164 11 0.08
165 119 0.92
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (164 bp):
TTGCACACATAGTGCCAATACGAAAATTCATAAACTCATTAAGAATTACATGAGGTTGCACACAT
AATGCCAATACAGAAATTCATAAACTCATTATGAATTTCGTGAGGTTGCACACATAGTGCCAATA
CGAAACTCATAAAATCATTAAGAATTTCATCGGG
Found at i:664853 original size:20 final size:21
Alignment explanation
Indices: 664810--664853 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
664800 CAACTAGCTT
** *
664810 ACATCCATAAATCTCCTTATA
1 ACATCCATAAATCTCCAAAGA
664831 ACATCCA-AAATCTCCAAAGA
1 ACATCCATAAATCTCCAAAGA
664851 ACA
1 ACA
664854 CTCAAAACTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.45, C:0.30, G:0.02, T:0.23
Consensus pattern (21 bp):
ACATCCATAAATCTCCAAAGA
Found at i:665991 original size:21 final size:21
Alignment explanation
Indices: 665949--665991 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
665939 CGTCAAAATT
* *
665949 TTTAGATGAATTTTCGTTAAA
1 TTTAGATGAATTTTCATGAAA
665970 TTTAGATGAA-TTTCATGGAAA
1 TTTAGATGAATTTTCAT-GAAA
665991 T
1 T
665992 CAAATTGAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.35, C:0.05, G:0.16, T:0.44
Consensus pattern (21 bp):
TTTAGATGAATTTTCATGAAA
Found at i:673734 original size:47 final size:47
Alignment explanation
Indices: 673678--673791 Score: 165
Period size: 47 Copynumber: 2.4 Consensus size: 47
673668 CATCGAAGTT
* * *
673678 CCACACAGATTTTTCCCGAAGGGTCGTGTAGAATTTTTCCTAAAGGA
1 CCACACAGATTTGTCCCGAAGGGCCGTGTAGAATTTGTCCTAAAGGA
* *
673725 CCACGCAGATTTGTCTCGAAGGGCCGTGTAGAATTTGTCCTAAAGGA
1 CCACACAGATTTGTCCCGAAGGGCCGTGTAGAATTTGTCCTAAAGGA
* *
673772 CCACATAGAATTGTCCCGAA
1 CCACACAGATTTGTCCCGAA
673792 TGACCACATA
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 58 1.00
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (47 bp):
CCACACAGATTTGTCCCGAAGGGCCGTGTAGAATTTGTCCTAAAGGA
Found at i:673770 original size:24 final size:24
Alignment explanation
Indices: 673696--673770 Score: 64
Period size: 24 Copynumber: 3.2 Consensus size: 24
673686 ATTTTTCCCG
* *
673696 AAGGGTCGTGTAGAATTTTTCCTA
1 AAGGGCCGTGTAGAATTTGTCCTA
* ** * *
673720 AAGGACCACGCAG-ATTTGT-CTCG
1 AAGGGCCGTGTAGAATTTGTCCT-A
673743 AAGGGCCGTGTAGAATTTGTCCTA
1 AAGGGCCGTGTAGAATTTGTCCTA
673767 AAGG
1 AAGG
673771 ACCACATAGA
Statistics
Matches: 36, Mismatches: 12, Indels: 6
0.67 0.22 0.11
Matches are distributed among these distances:
22 2 0.06
23 14 0.39
24 18 0.50
25 2 0.06
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (24 bp):
AAGGGCCGTGTAGAATTTGTCCTA
Found at i:673826 original size:23 final size:23
Alignment explanation
Indices: 673720--673818 Score: 90
Period size: 23 Copynumber: 4.3 Consensus size: 23
673710 ATTTTTCCTA
** *
673720 AAGGACCACGCAGATTTGTCTCG
1 AAGGACCACATAGATTTGTCCCG
* *** **
673743 AAGGGCCGTGTAGAATTTGTCCTA
1 AAGGACCACATAG-ATTTGTCCCG
*
673767 AAGGACCACATAGAATTGTCCCG
1 AAGGACCACATAGATTTGTCCCG
*
673790 AATGACCACATAGATTTGTCCCG
1 AAGGACCACATAGATTTGTCCCG
673813 AAGGAC
1 AAGGAC
673819 TGCGTAGAAC
Statistics
Matches: 58, Mismatches: 17, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
23 42 0.72
24 16 0.28
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.22
Consensus pattern (23 bp):
AAGGACCACATAGATTTGTCCCG
Found at i:673951 original size:15 final size:15
Alignment explanation
Indices: 673927--673961 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
673917 GTGTGTCTTA
*
673927 TTCACATAGGATATT
1 TTCACATAGGACATT
*
673942 TTCACGTAGGACATT
1 TTCACATAGGACATT
673957 TTCAC
1 TTCAC
673962 TTAGAACAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (15 bp):
TTCACATAGGACATT
Found at i:675881 original size:15 final size:14
Alignment explanation
Indices: 675863--676043 Score: 101
Period size: 13 Copynumber: 12.9 Consensus size: 14
675853 ATTAATTAAT
*
675863 TAATTAATAATACTA
1 TAATAAATAATA-TA
675878 TAATAAATAATATA
1 TAATAAATAATATA
675892 TAA-AAATAATATA
1 TAATAAATAATATA
*
675905 -ATATATAATATTATTA
1 TA-ATA-AATAATA-TA
* *
675921 TTATATACTATATATA
1 TAATA-AATA-ATATA
**
675937 TTGTAATATAA-ATA
1 TAATAA-ATAATATA
675951 TAAT--ATAATATA
1 TAATAAATAATATA
*
675963 TAATATATAACTGATA
1 TAATAAATAA-T-ATA
* *
675979 TAATATAT-ACATA
1 TAATAAATAATATA
*
675992 TAATATATAATATA
1 TAATAAATAATATA
676006 T-ATAAAT-ATACTA
1 TAATAAATAATA-TA
676019 TAAT-AATAATATA
1 TAATAAATAATATA
* *
676032 TACTATATAATA
1 TAATAAATAATA
676044 AACTATATAT
Statistics
Matches: 135, Mismatches: 14, Indels: 35
0.73 0.08 0.19
Matches are distributed among these distances:
11 4 0.03
12 11 0.08
13 38 0.28
14 31 0.23
15 21 0.16
16 28 0.21
17 2 0.01
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (14 bp):
TAATAAATAATATA
Found at i:675910 original size:2 final size:2
Alignment explanation
Indices: 675887--676135 Score: 143
Period size: 2 Copynumber: 132.5 Consensus size: 2
675877 ATAATAAATA
* *
675887 AT AT AT AA AA AT A- AT AT A- AT AT AT A- AT AT -T AT -T AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
675923 AT AT ACT AT AT AT AT -T GT A- AT AT AA AT AT A- AT AT A- AT AT
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
675962 AT A- AT AT AT A- ACT GAT AT A- AT AT AT AC AT AT A- AT AT AT A-
1 AT AT AT AT AT AT A-T -AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
676001 AT AT AT AT AA AT AT ACT AT A- AT A- AT A- AT AT AT ACT AT AT A-
1 AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT A-T AT AT AT
* * *
676041 AT AA ACT AT AT AT AT AT A- AT AT ACC AT AT -T AT AT A- AC A- AT
1 AT AT A-T AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT
* *
676081 AT ACC AT A- AC AT ACT AT A- AT AT AT AT AT AT AT AT AT AT AT AT
1 AT A-T AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT
676123 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
676136 CACTATATGA
Statistics
Matches: 197, Mismatches: 16, Indels: 68
0.70 0.06 0.24
Matches are distributed among these distances:
1 25 0.13
2 159 0.81
3 12 0.06
4 1 0.01
ACGTcount: A:0.53, C:0.05, G:0.01, T:0.41
Consensus pattern (2 bp):
AT
Found at i:675980 original size:53 final size:50
Alignment explanation
Indices: 675867--676152 Score: 192
Period size: 53 Copynumber: 5.4 Consensus size: 50
675857 ATTAATTAAT
* *
675867 TAATA-ATACTATA-ATAAATAATATATAAAAATAATATAATATATAATATTA
1 TAATATATACTATATATATAT-A-ATATAAATATAATATAATATATAATA-TA
* *
675918 TTATTATATACTATATATATTGTAATATAAATATAATATAATATATAATATA
1 -TAATATATACTATATATA-TATAATATAAATATAATATAATATATAATATA
* * *
675970 TAACTGATATAATATATACATATAATATATAATATATATAAATATACTATAATA-A
1 TAA-T-ATATACTATATATATATAATATA-AATATA-ATATA-ATA-TATAATATA
**
676025 TAATATATACTATATA-ATA-AACTATATATATATAATATACCATAT--TATA
1 TAATATATACTATATATATATAA-TATA-A-ATATAATATAATATATAATATA
* * * *
676074 TAACAATATACCATAACATACTATAATATATATAT-ATATATATATATATATATA
1 TAA-TATATACTAT-ATATA-TATAATATAAATATAATATA-ATATATA-ATATA
*
676128 TATATATACACTATATGATAATATA
1 TA-ATATATACTATAT-AT-ATATA
676153 CTAAATTTGT
Statistics
Matches: 187, Mismatches: 23, Indels: 46
0.73 0.09 0.18
Matches are distributed among these distances:
48 2 0.01
49 4 0.02
50 16 0.09
51 15 0.08
52 29 0.16
53 74 0.40
54 30 0.16
55 10 0.05
56 7 0.04
ACGTcount: A:0.53, C:0.06, G:0.01, T:0.40
Consensus pattern (50 bp):
TAATATATACTATATATATATAATATAAATATAATATAATATATAATATA
Found at i:678286 original size:16 final size:16
Alignment explanation
Indices: 678261--678291 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
678251 CCAACGTTTA
*
678261 TGTTCTTTTATGTTCG
1 TGTTCGTTTATGTTCG
678277 TGTTCGTTTATGTTC
1 TGTTCGTTTATGTTC
678292 ATTTATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.06, C:0.13, G:0.19, T:0.61
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:678387 original size:16 final size:16
Alignment explanation
Indices: 678362--678402 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
678352 AAAAAAATTT
*
678362 TGTTCGTTTATGATCG
1 TGTTCATTTATGATCG
*
678378 TGTTCATTTATGTTCG
1 TGTTCATTTATGATCG
678394 T-TT-ATTTAT
1 TGTTCATTTAT
678403 TAAATGAACG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 6 0.26
15 2 0.09
16 15 0.65
ACGTcount: A:0.15, C:0.10, G:0.17, T:0.59
Consensus pattern (16 bp):
TGTTCATTTATGATCG
Found at i:678659 original size:18 final size:18
Alignment explanation
Indices: 678638--678673 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
678628 ATTTGAATAA
678638 TTGAATCGAATATAAAAT
1 TTGAATCGAATATAAAAT
678656 TTGAATCGAATATAAAAT
1 TTGAATCGAATATAAAAT
678674 CTTAAAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.06, G:0.11, T:0.33
Consensus pattern (18 bp):
TTGAATCGAATATAAAAT
Found at i:679145 original size:26 final size:25
Alignment explanation
Indices: 679089--679141 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 25
679079 AACAAAATCC
*
679089 AAACAACCAAATATTCAAATCTGTT
1 AAACAACCAAATATTCAAATATGTT
679114 AAACAACCAAAT-TCATCAAA-ATGTT
1 AAACAACCAAATAT--TCAAATATGTT
679139 AAA
1 AAA
679142 ACAATGCATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
24 1 0.04
25 19 0.76
26 5 0.20
ACGTcount: A:0.53, C:0.19, G:0.04, T:0.25
Consensus pattern (25 bp):
AAACAACCAAATATTCAAATATGTT
Found at i:681386 original size:15 final size:15
Alignment explanation
Indices: 681368--681401 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
681358 ACATCTTCTT
*
681368 TAATGACATGATCTC
1 TAATGAAATGATCTC
*
681383 TAATGAAATGATGTC
1 TAATGAAATGATCTC
681398 TAAT
1 TAAT
681402 TTCAATATGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (15 bp):
TAATGAAATGATCTC
Found at i:683453 original size:18 final size:18
Alignment explanation
Indices: 683424--683473 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
683414 GACTACATAT
*
683424 AACACATATGTCCCGAACG
1 AACAC-TATGTCCCAAACG
*
683443 AACACTATGTCCCAAAGG
1 AACACTATGTCCCAAACG
*
683461 ACCACTATGTCCC
1 AACACTATGTCCC
683474 TAATGACCGC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
18 23 0.82
19 5 0.18
ACGTcount: A:0.34, C:0.34, G:0.14, T:0.18
Consensus pattern (18 bp):
AACACTATGTCCCAAACG
Found at i:684282 original size:20 final size:22
Alignment explanation
Indices: 684257--684314 Score: 84
Period size: 20 Copynumber: 2.6 Consensus size: 22
684247 TTCCCCTTGA
684257 AGTGCATCGATGCATTC-T-AC
1 AGTGCATCGATGCATTCTTAAC
684277 AGTGCATCGATGCATTCTTTAAC
1 AGTGCATCGATGCATTC-TTAAC
684300 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
684315 CTACCCATGC
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 17 0.50
22 1 0.03
23 3 0.09
24 13 0.38
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (22 bp):
AGTGCATCGATGCATTCTTAAC
Found at i:684390 original size:65 final size:63
Alignment explanation
Indices: 684302--684444 Score: 155
Period size: 65 Copynumber: 2.2 Consensus size: 63
684292 TCTTTAACAT
* * * *
684302 GTGCATCGATGCACTACCCATGCATTGATAAACAAATTACCTTCGATGTTTTCATT-TTTAAAGG
1 GTGCATCGATGCACTACCCATGCATCGATAAACAAATTACATTCGACG-TTTC-TTCTTTAAAGA
* ** * *
684366 GATGCATCGATGCACT-CCTTATGCATCGATGCACCAATTGCATTCGACGTTTCTTCTTTAAAGA
1 G-TGCATCGATGCACTACC-CATGCATCGATAAACAAATTACATTCGACGTTTCTTCTTTAAAGA
684430 GTGCATCGATGCACT
1 GTGCATCGATGCACT
684445 TTGAATTTGC
Statistics
Matches: 67, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
63 16 0.24
64 15 0.22
65 36 0.54
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (63 bp):
GTGCATCGATGCACTACCCATGCATCGATAAACAAATTACATTCGACGTTTCTTCTTTAAAGA
Found at i:686074 original size:65 final size:64
Alignment explanation
Indices: 685943--686099 Score: 174
Period size: 65 Copynumber: 2.4 Consensus size: 64
685933 GAAATAAATT
* * * * *
685943 AAACACCGAATGCATTTCATGCATTGATGCACATACCATACATCGATGCACTGAGGATTTTATG
1 AAACATCGAATGCATTTGATGCATCGATGCACATACCATACATCGATGCACTCAGCATTTTATG
* * * *
686007 AAAACATCGAATGCATTTGATGCATCGATGCACCA-GCCATGCATCGATGCACTCTGCCTATTT-
1 -AAACATCGAATGCATTTGATGCATCGATGCA-CATACCATACATCGATGCACTCAGCAT-TTTA
686070 TG
63 TG
* *
686072 AAACATTGAATGCACTTGATGCATCGAT
1 AAACATCGAATGCATTTGATGCATCGAT
686100 ACACTCGTAG
Statistics
Matches: 79, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
64 26 0.33
65 48 0.61
66 5 0.06
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (64 bp):
AAACATCGAATGCATTTGATGCATCGATGCACATACCATACATCGATGCACTCAGCATTTTATG
Found at i:691897 original size:20 final size:21
Alignment explanation
Indices: 691872--692012 Score: 79
Period size: 23 Copynumber: 6.4 Consensus size: 21
691862 TTGTGCTTAA
691872 TGCATCGATACACC-T-AACAG
1 TGCATCGATACACCTTGAA-AG
* *
691892 TGCATCGATGCATCCTTGAATG
1 TGCATCGATACA-CCTTGAAAG
**
691914 TGCATCGATACACCACGAAAG
1 TGCATCGATACACCTTGAAAG
* ** *
691935 TGCACCAAGGCACACCTTGAATG
1 TGCATC--GATACACCTTGAAAG
* * *
691958 TGCATCAATGCACGCCTTGAATG
1 TGCATCGAT--ACACCTTGAAAG
* *
691981 TGCATCGATGCATGCCTTGAATG
1 TGCATCGATACA--CCTTGAAAG
692004 TGCATCGAT
1 TGCATCGAT
692013 GCACAAGGTC
Statistics
Matches: 92, Mismatches: 20, Indels: 15
0.72 0.16 0.12
Matches are distributed among these distances:
20 11 0.12
21 14 0.15
22 13 0.14
23 54 0.59
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.24
Consensus pattern (21 bp):
TGCATCGATACACCTTGAAAG
Found at i:691960 original size:23 final size:23
Alignment explanation
Indices: 691934--692016 Score: 112
Period size: 23 Copynumber: 3.6 Consensus size: 23
691924 CACCACGAAA
* * *
691934 GTGCACCAAGGCACACCTTGAAT
1 GTGCATCAATGCACGCCTTGAAT
691957 GTGCATCAATGCACGCCTTGAAT
1 GTGCATCAATGCACGCCTTGAAT
* *
691980 GTGCATCGATGCATGCCTTGAAT
1 GTGCATCAATGCACGCCTTGAAT
*
692003 GTGCATCGATGCAC
1 GTGCATCAATGCAC
692017 AAGGTCATGC
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 54 1.00
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (23 bp):
GTGCATCAATGCACGCCTTGAAT
Found at i:692002 original size:46 final size:43
Alignment explanation
Indices: 691890--692038 Score: 140
Period size: 46 Copynumber: 3.4 Consensus size: 43
691880 TACACCTAAC
*
691890 AGTGCATCGATGCATCCTTGAATGTGCATCGATACACCACGAA
1 AGTGCATCGATGCATCCTTGAATGTGCATCGATGCACCACGAA
* * * * *
691933 AGTGCACCAAGGCACACCTTGAATGTGCATCAATGCACGC-CTTGAA
1 AGTGCATCGATGCA-TCCTTGAATGTGCATCGATGCAC-CAC--GAA
* * * **
691979 TGTGCATCGATGCATGCCTTGAATGTGCATCGATGCACAAGGTC
1 AGTGCATCGATGCAT-CCTTGAATGTGCATCGATGCACCACGAA
692023 A-TGCATCGATGCATCC
1 AGTGCATCGATGCATCC
692039 GTCGGGTTTT
Statistics
Matches: 83, Mismatches: 17, Indels: 13
0.73 0.15 0.12
Matches are distributed among these distances:
42 2 0.02
43 24 0.29
44 22 0.27
45 1 0.01
46 34 0.41
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (43 bp):
AGTGCATCGATGCATCCTTGAATGTGCATCGATGCACCACGAA
Found at i:694369 original size:34 final size:34
Alignment explanation
Indices: 694287--694372 Score: 156
Period size: 34 Copynumber: 2.6 Consensus size: 34
694277 AAACAAAAAG
*
694287 GGGGAGAAGTGTT-AAGTGTTAAAATGTTTTAAA
1 GGGGAGAAGTGTTAAAGTATTAAAATGTTTTAAA
694320 GGGGAGAAGTGTTAAAGTATTAAAATGTTTTAAA
1 GGGGAGAAGTGTTAAAGTATTAAAATGTTTTAAA
694354 GGGGAGAAGTGTTAAAGTA
1 GGGGAGAAGTGTTAAAGTA
694373 AGGGGGAGTA
Statistics
Matches: 51, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
33 13 0.25
34 38 0.75
ACGTcount: A:0.38, C:0.00, G:0.31, T:0.30
Consensus pattern (34 bp):
GGGGAGAAGTGTTAAAGTATTAAAATGTTTTAAA
Found at i:694852 original size:46 final size:45
Alignment explanation
Indices: 694801--694904 Score: 147
Period size: 45 Copynumber: 2.3 Consensus size: 45
694791 ACATACCATA
* *
694801 CATCGATGCACTGAGGAT-TTTATGAAAACATCGAATGCATTTGATG
1 CATCGATGCACTCAGGATATTT-TG-AAACATCGAATGCACTTGATG
* *
694847 CATCGATGCACTCTGGCTATTTTGAAACATCGAATGCACTTGATG
1 CATCGATGCACTCAGGATATTTTGAAACATCGAATGCACTTGATG
694892 CATCGATGCACTC
1 CATCGATGCACTC
694905 GTAGTGCACC
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
45 33 0.62
46 17 0.32
47 3 0.06
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (45 bp):
CATCGATGCACTCAGGATATTTTGAAACATCGAATGCACTTGATG
Found at i:697223 original size:33 final size:33
Alignment explanation
Indices: 697186--697253 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
697176 GAAAGAAGCT
697186 TTAAGATCATCAATTTTCTTTTGATGATCATCA
1 TTAAGATCATCAATTTTCTTTTGATGATCATCA
697219 TTAAGATCATCAATTTTCTTTTGATGATCATCA
1 TTAAGATCATCAATTTTCTTTTGATGATCATCA
697252 TT
1 TT
697254 GACTCTTGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.29, C:0.15, G:0.09, T:0.47
Consensus pattern (33 bp):
TTAAGATCATCAATTTTCTTTTGATGATCATCA
Found at i:699718 original size:20 final size:20
Alignment explanation
Indices: 699677--699718 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
699667 GTAAAAATTG
* *
699677 ATATTTGAAAACTTTTAGTA
1 ATATTTGAAAACTTTGAATA
699697 ATATTTGAAATA-TTTGAATA
1 ATATTTGAAA-ACTTTGAATA
699717 AT
1 AT
699719 TGAATCGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.43, C:0.02, G:0.10, T:0.45
Consensus pattern (20 bp):
ATATTTGAAAACTTTGAATA
Found at i:701573 original size:30 final size:30
Alignment explanation
Indices: 701552--702119 Score: 326
Period size: 30 Copynumber: 19.0 Consensus size: 30
701542 AGAATGCGAT
* * *
701552 TGAATTTCGGGTCGAACTTGAGAGTTTGAC
1 TGAATTACGGGTAGAACTTGAGAGTTCGAC
*
701582 TGAATTTCGGGTAGAACTTGAGAGTTCGGA-
1 TGAATTACGGGTAGAACTTGAGAGTTC-GAC
* *
701612 TGAATTACGGATAGAACTTGAGAGTTCGCC
1 TGAATTACGGGTAGAACTTGAGAGTTCGAC
* *
701642 TGAACTACGGGTAGAACTTGAGATTTCGAC
1 TGAATTACGGGTAGAACTTGAGAGTTCGAC
* * **
701672 TAAATTACGGGTAGAACTTGAGAGTTTGTT
1 TGAATTACGGGTAGAACTTGAGAGTTCGAC
* * * * *
701702 TGAATTCCGGATTGAACTTGAGATTTTGGA-
1 TGAATTACGGGTAGAACTTGAGA-GTTCGAC
* *
701732 TGAATTACGGGTAGAACTTGAGATTTCGGC
1 TGAATTACGGGTAGAACTTGAGAGTTCGAC
* * *
701762 T-AAATAAGGGTAGAACTTGAGAGTTCGGC
1 TGAATTACGGGTAGAACTTGAGAGTTCGAC
* * * * * **
701791 TGAATTACAGATAAAATTTGAGATTTCGGT
1 TGAATTACGGGTAGAACTTGAGAGTTCGAC
* * *
701821 TGAATT-CTAGGTCGAACTTGAGAGTTCGGC
1 TGAATTAC-GGGTAGAACTTGAGAGTTCGAC
* * * *
701851 TGAACTGCGGG-ACGAACTTGAGAATTCGGC
1 TGAATTACGGGTA-GAACTTGAGAGTTCGAC
* * * * * *
701881 CGAATTCCGGGTCGAACTTGATATTTCGGC
1 TGAATTACGGGTAGAACTTGAGAGTTCGAC
* * *
701911 TGAATTTCGGGTTGAATTTGAGA-TTCCGAC
1 TGAATTACGGGTAGAACTTGAGAGTT-CGAC
* * * * **
701941 TTAATTCCAGGTCGAACTTGAGAGTTCGGT
1 TGAATTACGGGTAGAACTTGAGAGTTCGAC
* * **
701971 TGAACTGC-GGTACGAACTTGAGAGTTCGGT
1 TGAATTACGGGTA-GAACTTGAGAGTTCGAC
* * ** * * *
702001 TGAAGTGCAAGTCGAACTTGAGAATTCAAC
1 TGAATTACGGGTAGAACTTGAGAGTTCGAC
* * * *
702031 TGAATT-CTAGGTCGAACTTGAGAATTCGGC
1 TGAATTAC-GGGTAGAACTTGAGAGTTCGAC
* ** * * *
702061 TGAATT-CTAGGCCGAAATTGAGAATTCGGC
1 TGAATTAC-GGGTAGAACTTGAGAGTTCGAC
* * *
702091 TGAATTCCGGGTTGAACTTGAGAATTCGA
1 TGAATTACGGGTAGAACTTGAGAGTTCGA
702120 TTGACTCTTG
Statistics
Matches: 434, Mismatches: 89, Indels: 30
0.78 0.16 0.05
Matches are distributed among these distances:
29 38 0.09
30 385 0.89
31 11 0.03
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.30
Consensus pattern (30 bp):
TGAATTACGGGTAGAACTTGAGAGTTCGAC
Found at i:701685 original size:90 final size:90
Alignment explanation
Indices: 701559--702119 Score: 402
Period size: 90 Copynumber: 6.2 Consensus size: 90
701549 GATTGAATTT
* * * *
701559 CGGGTCGAACTTGAGAGTTT-GACTGAATTTCGGGTAGAACTTGAGAGTTCGGATGAATTACGGA
1 CGGGTAGAACTTGAGA-TTTCGACTAAATTACGGGTAGAACTTGAGAGTTCGGCTGAATTACGGA
* *
701623 TAGAACTTGAGAGTTCGCCTGAACTA
65 TAGAACTTGAGATTTCGGCTGAACTA
* ** *
701649 CGGGTAGAACTTGAGATTTCGACTAAATTACGGGTAGAACTTGAGAGTTTGTTTGAATTCCGGAT
1 CGGGTAGAACTTGAGATTTCGACTAAATTACGGGTAGAACTTGAGAGTTCGGCTGAATTACGGAT
* * * *
701714 TGAACTTGAGATTTTGGATGAATTA
66 AGAACTTGAGATTTCGGCTGAACTA
* * *
701739 CGGGTAGAACTTGAGATTTCGGCTAAA-TAAGGGTAGAACTTGAGAGTTCGGCTGAATTACAGAT
1 CGGGTAGAACTTGAGATTTCGACTAAATTACGGGTAGAACTTGAGAGTTCGGCTGAATTACGGAT
* * *
701803 AAAATTTGAGATTTCGGTTGAATTCTA
66 AGAACTTGAGATTTCGGCTGAA--CTA
* * * * * * * * * *
701830 --GGTCGAACTTGAGAGTTCGGCTGAACTGCGGG-ACGAACTTGAGAATTCGGCCGAATTCCGGG
1 CGGGTAGAACTTGAGATTTCGACTAAATTACGGGTA-GAACTTGAGAGTTCGGCTGAATTACGGA
* * * *
701892 TCGAACTTGATATTTCGGCTGAATTT
65 TAGAACTTGAGATTTCGGCTGAACTA
* * * * * * * * * *
701918 CGGGTTGAATTTGAGATTCCGACTTAATTCCAGGTCGAACTTGAGAGTTCGGTTGAACTGCGG-T
1 CGGGTAGAACTTGAGATTTCGACTAAATTACGGGTAGAACTTGAGAGTTCGGCTGAATTACGGAT
* * * *
701982 ACGAACTTGAGAGTTCGGTTGAAGTG
66 A-GAACTTGAGATTTCGGCTGAACTA
** * * * * * * *
702008 CAAGTCGAACTTGAGAATTCAACTGAATT-CTAGGTCGAACTTGAGAATTCGGCTGAATT-CTAG
1 CGGGTAGAACTTGAGATTTCGACTAAATTAC-GGGTAGAACTTGAGAGTTCGGCTGAATTAC--G
** * * * *
702071 G-CCGAAATTGAGAATTCGGCTGAATTC
63 GATAGAACTTGAGATTTCGGCTGAACTA
* *
702098 CGGGTTGAACTTGAGAATTCGA
1 CGGGTAGAACTTGAGATTTCGA
702120 TTGACTCTTG
Statistics
Matches: 373, Mismatches: 86, Indels: 24
0.77 0.18 0.05
Matches are distributed among these distances:
88 1 0.00
89 77 0.21
90 291 0.78
91 4 0.01
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (90 bp):
CGGGTAGAACTTGAGATTTCGACTAAATTACGGGTAGAACTTGAGAGTTCGGCTGAATTACGGAT
AGAACTTGAGATTTCGGCTGAACTA
Found at i:701853 original size:60 final size:60
Alignment explanation
Indices: 701552--702118 Score: 393
Period size: 60 Copynumber: 9.5 Consensus size: 60
701542 AGAATGCGAT
* * * * * *
701552 TGAATTTCGGGTCGAACTTGAGAGTTT-GACTGAATT-TCGGGTAGAACTTGAGAGTTCGGA
1 TGAATTACGGGTAGAACTTGAGA-TTTCGGCTGAATTCT-AGGTCGAACTTGAGAGTTCGGC
* * * * * *
701612 TGAATTACGGATAGAACTTGAGAGTTCGCCTGAA--CTACGGGTAGAACTTGAGATTTCGAC
1 TGAATTACGGGTAGAACTTGAGATTTCGGCTGAATTCTA--GGTCGAACTTGAGAGTTCGGC
* ** * * * * *
701672 TAAATTACGGGTAGAACTTGAGAGTTT-GTTTGAATTC-CGGATTGAACTTGAGATTTTGGA
1 TGAATTACGGGTAGAACTTGAGA-TTTCGGCTGAATTCTAGG-TCGAACTTGAGAGTTCGGC
* * *
701732 TGAATTACGGGTAGAACTTGAGATTTCGGCT-AAAT-AAGGGTAGAACTTGAGAGTTCGGC
1 TGAATTACGGGTAGAACTTGAGATTTCGGCTGAATTCTA-GGTCGAACTTGAGAGTTCGGC
* * * * *
701791 TGAATTACAGATAAAATTTGAGATTTCGGTTGAATTCTAGGTCGAACTTGAGAGTTCGGC
1 TGAATTACGGGTAGAACTTGAGATTTCGGCTGAATTCTAGGTCGAACTTGAGAGTTCGGC
* * * * ** * *
701851 TGAACTGCGGG-ACGAACTTGAGAATTCGGCCGAATTCCGGGTCGAACTTGATATTTCGGC
1 TGAATTACGGGTA-GAACTTGAGATTTCGGCTGAATTCTAGGTCGAACTTGAGAGTTCGGC
* * * * * * * *
701911 TGAATTTCGGGTTGAATTTGAGATTCCGACTTAATTCCAGGTCGAACTTGAGAGTTCGGT
1 TGAATTACGGGTAGAACTTGAGATTTCGGCTGAATTCTAGGTCGAACTTGAGAGTTCGGC
* * * * * * * **
701971 TGAACTGC-GGTACGAACTTGAGAGTTCGGTTGAAGTGC-AAGTCGAACTTGAGAATTCAAC
1 TGAATTACGGGTA-GAACTTGAGATTTCGGCTGAA-TTCTAGGTCGAACTTGAGAGTTCGGC
* * * * * *
702031 TGAATT-CTAGGTCGAACTTGAGAATTCGGCTGAATTCTAGGCCGAAATTGAGAATTCGGC
1 TGAATTAC-GGGTAGAACTTGAGATTTCGGCTGAATTCTAGGTCGAACTTGAGAGTTCGGC
* * *
702091 TGAATTCCGGGTTGAACTTGAGAATTCG
1 TGAATTACGGGTAGAACTTGAGATTTCG
702119 ATTGACTCTT
Statistics
Matches: 397, Mismatches: 89, Indels: 42
0.75 0.17 0.08
Matches are distributed among these distances:
59 59 0.15
60 328 0.83
61 9 0.02
62 1 0.00
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.30
Consensus pattern (60 bp):
TGAATTACGGGTAGAACTTGAGATTTCGGCTGAATTCTAGGTCGAACTTGAGAGTTCGGC
Found at i:703671 original size:9 final size:9
Alignment explanation
Indices: 703644--703674 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
703634 GTGTGAACTG
703644 GCGGTTCAA
1 GCGGTTCAA
*
703653 CCGGTTCAA
1 GCGGTTCAA
703662 GCGGTTCAA
1 GCGGTTCAA
703671 GCGG
1 GCGG
703675 GTCATCATCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.19, C:0.26, G:0.35, T:0.19
Consensus pattern (9 bp):
GCGGTTCAA
Found at i:707232 original size:46 final size:45
Alignment explanation
Indices: 707133--707236 Score: 131
Period size: 46 Copynumber: 2.3 Consensus size: 45
707123 ATAATACAAA
* *
707133 GTCTAATTCATAATTAGTGCTACAACACATCAAACTAACAATATT
1 GTCTAAGTCATAATTAGTACTACAACACATCAAACTAACAATATT
* *
707178 GT-TGAAGTCTATAATTAGTACTACAACACATTAGAGCTAA-AATATT
1 GTCT-AAGTC-ATAATTAGTACTACAACACATCA-AACTAACAATATT
707224 GTCTAAGTCATAA
1 GTCTAAGTCATAA
707237 ATAATTTTAC
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
44 1 0.02
45 10 0.20
46 34 0.67
47 6 0.12
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.32
Consensus pattern (45 bp):
GTCTAAGTCATAATTAGTACTACAACACATCAAACTAACAATATT
Found at i:710259 original size:32 final size:31
Alignment explanation
Indices: 710215--710299 Score: 89
Period size: 31 Copynumber: 2.7 Consensus size: 31
710205 AGAAAGTTCG
* *
710215 GGGCCACGGGGCCTACCTAAGAACACATCTTA
1 GGGCCACAGGGCCTACCTAAGAA-ACATCTCA
** **
710247 GGGCCACAGGGCCTACCCGAGAATGATCTCA
1 GGGCCACAGGGCCTACCTAAGAAACATCTCA
* *
710278 GGGCCGCAGAGCCTACCTAAGA
1 GGGCCACAGGGCCTACCTAAGA
710300 GTCTCATTAG
Statistics
Matches: 43, Mismatches: 10, Indels: 1
0.80 0.19 0.02
Matches are distributed among these distances:
31 23 0.53
32 20 0.47
ACGTcount: A:0.27, C:0.32, G:0.28, T:0.13
Consensus pattern (31 bp):
GGGCCACAGGGCCTACCTAAGAAACATCTCA
Found at i:722578 original size:17 final size:18
Alignment explanation
Indices: 722556--722598 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
722546 GGTCAATAGT
* *
722556 GGTCAACATC-GGTCAAC
1 GGTCAACAGCAGGTCAAA
722573 GGTCAAC-GCAGGTCAAA
1 GGTCAACAGCAGGTCAAA
722590 GGTCAACAG
1 GGTCAACAG
722599 TAGACCATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 1 0.05
17 20 0.91
18 1 0.05
ACGTcount: A:0.33, C:0.26, G:0.28, T:0.14
Consensus pattern (18 bp):
GGTCAACAGCAGGTCAAA
Found at i:732665 original size:22 final size:22
Alignment explanation
Indices: 732635--732697 Score: 90
Period size: 22 Copynumber: 2.9 Consensus size: 22
732625 TATAACTCAC
* *
732635 AACTAAAGCCTTATTGCTAACA
1 AACTCAAGCCTTACTGCTAACA
*
732657 AGCTCAAGCCTTACTGCTAACA
1 AACTCAAGCCTTACTGCTAACA
*
732679 AACTCAAGCCTAACTGCTA
1 AACTCAAGCCTTACTGCTA
732698 CTAACAACTC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.37, C:0.29, G:0.11, T:0.24
Consensus pattern (22 bp):
AACTCAAGCCTTACTGCTAACA
Found at i:736564 original size:131 final size:131
Alignment explanation
Indices: 736323--736689 Score: 488
Period size: 132 Copynumber: 2.8 Consensus size: 131
736313 ATTTTAAGAT
* * *
736323 AGAAAATAATAATATCTAATTATTTCTAATCGAGAATAAATGACCTCTCATGCCTTAGAGCA-AT
1 AGAAAACAATAATATCTAATTATTTCCAATCGAGAATAAATGA-CTCTCATGCCTTAAAGCATA-
* * *
736387 CATTTATTACTCCAACCGAAATGAAAAGATATTACTATTTCGTCTT-AAAATTCAATATTGATTT
64 CATTTATTACTCCAACCGAAATGAAGAGATATTACTATTTCGTCTTAAAAAATCAATATTGATTC
736451 GAG
129 GAG
* * *
736454 CGAAAACAATAATATCTAATGATTTCCAATCGATAATAAATGATCTCTCATGCCTTAAAGCATAC
1 AGAAAACAATAATATCTAATTATTTCCAATCGAGAATAAATGA-CTCTCATGCCTTAAAGCATAC
* * *
736519 ATTTATTACTCTAATCGAAATGAAGAGATATCACTATTCTC-TCTTAAAAAATCAATATTGATTC
65 ATTTATTACTCCAACCGAAATGAAGAGATATTACTATT-TCGTCTTAAAAAATCAATATTGATTC
736583 GAG
129 GAG
* * * * * *
736586 AGAAAACAATAATATCTAATTATTTTCAATAGAGAATAACTGACATCTCATGTCTTAAAGAATTC
1 AGAAAACAATAATATCTAATTATTTCCAATCGAGAATAAATGAC-TCTCATGCCTTAAAGCATAC
* *
736651 ATTTATTTCTCCAACCGAAACGAAGAGATATTACTATTT
65 ATTTATTACTCCAACCGAAATGAAGAGATATTACTATTT
736690 TCAATATGGA
Statistics
Matches: 205, Mismatches: 27, Indels: 8
0.85 0.11 0.03
Matches are distributed among these distances:
131 96 0.47
132 109 0.53
ACGTcount: A:0.40, C:0.16, G:0.10, T:0.34
Consensus pattern (131 bp):
AGAAAACAATAATATCTAATTATTTCCAATCGAGAATAAATGACTCTCATGCCTTAAAGCATACA
TTTATTACTCCAACCGAAATGAAGAGATATTACTATTTCGTCTTAAAAAATCAATATTGATTCGA
G
Found at i:737322 original size:2 final size:2
Alignment explanation
Indices: 737315--737365 Score: 79
Period size: 2 Copynumber: 26.5 Consensus size: 2
737305 CATGCATACA
737315 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
737355 AT AT AG AT AT A
1 AT AT AT AT AT A
737366 ATTACATAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
1 2 0.04
2 43 0.96
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (2 bp):
AT
Found at i:739702 original size:244 final size:243
Alignment explanation
Indices: 739199--740010 Score: 1083
Period size: 244 Copynumber: 3.3 Consensus size: 243
739189 CGCATGAACA
* * * * * * *
739199 CATCTTGCCCG-AAGGTCTTATAGATGGCCCAAAGGACTT-ATCATCTTGCTCGAAAGACTAACA
1 CATCTTGCTCGAAAGG-CTTATAGATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACT
* * ** * * * *
739262 GATGGCTCGAAGGTCTTAGTAATTTTAGAAGTAGTTTAATAGGTAAGAAACTTTGGAAATCGTTT
65 GATGGCCCGAAGGACTTACCAATTTTGGAAATAGTTTACTAGGTAAG-AACTTTGAAAATCGTTT
* *
739327 TCTTACTTTTCAAAAACTTCAATTTTCAGATTTAAATGAGAAA-TTTTTCTTATTTTTCAAAAAC
129 TCTTACTTTTCAAAAATTTCAATTTTCAGATTTAAATGAGAAACTTTTTCTCATTTTTCAAAAAC
* *
739391 ATGTGAAAACATCCTGCCCGAAGGTCTTATGGATGGCCCGAAAGACTTAT
194 ATGTGAAAACATCCTGCCCGAAGGTCTTGTGGATGGCCCGAAGGACTTAT
* * * * *
739441 CATCTTGCTCGAAAGGCTTATAGATGATCCGAAGGATTTACTCGTCATACTCAAAAGACTTACTG
1 CATCTTGCTCGAAAGGCTTATAGATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTG
* * *
739506 ATGGCCCGAAGGACTTACCAATTTTGGAAATATTTTACTAGGTAAGAACTTTGAAAATCATTTTA
66 ATGGCCCGAAGGACTTACCAATTTTGGAAATAGTTTACTAGGTAAGAACTTTGAAAATCGTTTTC
739571 TTACTTTTCAAAAATTTCAATTTTCAGATTTAAATGAGAAACTTTTTCTCATTTTTCAAAAAACA
131 TTACTTTTCAAAAATTTCAATTTTCAGATTTAAATGAGAAACTTTTTCTCATTTTTC-AAAAACA
*
739636 TGTGAAAACATCCTGCCCGAAGATCTTGTGGATGGCCCGAAGGACTTAT
195 TGTGAAAACATCCTGCCCGAAGGTCTTGTGGATGGCCCGAAGGACTTAT
* * * * * *
739685 TATATTGCTAGAAAGGCTTATAGATGACCCGAAGGATTTAATCATAATGCTGGGAAGACTTACTG
1 CATCTTGCTCGAAAGGCTTATAGATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTG
* *
739750 ATGGCCCGAAGGACATACCAATTTTGGAAATAGTTTACTAGGTAAGAATTTTGAAAATCGTTTTC
66 ATGGCCCGAAGGACTTACCAATTTTGGAAATAGTTTACTAGGTAAGAACTTTGAAAATCGTTTTC
* * * * *
739815 CTACTTTTCAAAAATTTTAATTTTTAGATTTAAATGAGAAAC-TTTTCTCATTTTTTTGAAAAAT
131 TTACTTTTCAAAAATTTCAATTTTCAGATTTAAATGAGAAACTTTTTCTCA--TTTTTCAAAAAC
* * * * *
739879 ATGTGAAAACATACTGTCCGAAGGTCTTGTAGTTGGCCCAAAGGACTTAT
194 ATGTGAAAACATCCTGCCCGAAGGTCTTGTGGATGGCCCGAAGGACTTAT
* * * *
739929 CATCTTGCTCGAAAGGGTTATAGATAACCCGAAGGATTTAATCATCATGCTTGAAAGACTTACTA
1 CATCTTGCTCGAAAGGCTTATAGATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTG
* *
739994 ATGACCCGAATGACTTA
66 ATGGCCCGAAGGACTTA
740011 TTATGTAAGA
Statistics
Matches: 497, Mismatches: 67, Indels: 10
0.87 0.12 0.02
Matches are distributed among these distances:
242 85 0.17
243 82 0.16
244 325 0.65
245 5 0.01
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Consensus pattern (243 bp):
CATCTTGCTCGAAAGGCTTATAGATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTG
ATGGCCCGAAGGACTTACCAATTTTGGAAATAGTTTACTAGGTAAGAACTTTGAAAATCGTTTTC
TTACTTTTCAAAAATTTCAATTTTCAGATTTAAATGAGAAACTTTTTCTCATTTTTCAAAAACAT
GTGAAAACATCCTGCCCGAAGGTCTTGTGGATGGCCCGAAGGACTTAT
Found at i:744679 original size:8 final size:8
Alignment explanation
Indices: 744640--744697 Score: 59
Period size: 8 Copynumber: 7.5 Consensus size: 8
744630 GTTAAAAGAT
744640 ATAATAAA
1 ATAATAAA
*
744648 ATAA-ATA
1 ATAATAAA
*
744655 ATTAT-AA
1 ATAATAAA
*
744662 TTAA-AAA
1 ATAATAAA
744669 ATAATAAA
1 ATAATAAA
744677 ATAATAAA
1 ATAATAAA
744685 ATAATAAA
1 ATAATAAA
744693 TATAA
1 -ATAA
744698 ATAGTAATAA
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
7 13 0.32
8 23 0.57
9 4 0.10
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (8 bp):
ATAATAAA
Found at i:744705 original size:16 final size:16
Alignment explanation
Indices: 744640--744718 Score: 69
Period size: 16 Copynumber: 5.2 Consensus size: 16
744630 GTTAAAAGAT
744640 ATAATAAA-ATAAATA
1 ATAATAAATATAAATA
* *
744655 ATTAT-AAT-TAAAAA
1 ATAATAAATATAAATA
*
744669 ATAATAAA-ATAATAAA
1 ATAATAAATATAA-ATA
744685 ATAATAAATATAAATA
1 ATAATAAATATAAATA
* *
744701 GTAATAAATTTAAA-A
1 ATAATAAATATAAATA
744716 ATA
1 ATA
744719 GGGTTTTAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 10
0.75 0.10 0.14
Matches are distributed among these distances:
14 11 0.21
15 12 0.23
16 25 0.48
17 4 0.08
ACGTcount: A:0.68, C:0.00, G:0.01, T:0.30
Consensus pattern (16 bp):
ATAATAAATATAAATA
Found at i:744706 original size:32 final size:29
Alignment explanation
Indices: 744631--744718 Score: 77
Period size: 31 Copynumber: 2.9 Consensus size: 29
744621 CCAGATAAAG
* *
744631 TTAAAAGATATAATAAAATAAATAATTATAA
1 TTAAAA-A-ATAATAAAATAAAAAATAATAA
744662 TTAAAAAATAATAAAATAATAAAATAATAAA
1 TTAAAAAATAATAAAATAA-AAAATAAT-AA
* * * *
744693 TATAAATAGTAATAAATTTAAAAATA
1 T-TAAAAAATAATAAAATAAAAAATA
744719 GGGTTTTAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
29 12 0.25
30 7 0.15
31 15 0.31
32 14 0.29
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (29 bp):
TTAAAAAATAATAAAATAAAAAATAATAA
Found at i:749118 original size:5 final size:5
Alignment explanation
Indices: 749108--749208 Score: 78
Period size: 5 Copynumber: 19.8 Consensus size: 5
749098 TGTTCAAAGA
* ** *
749108 AAAAT AAAAT AAAAT AAATT AAAAT AAAAT -AAAT TTAAT GAAAAT AAAGT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT AAAAT
** * * * *
749158 TCACT GAAAAT AAAAT AAAAAT AAAAC ATAAT AAAAT AAAAT AAAAC AAAA
1 AAAAT -AAAAT AAAAT -AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
749209 ATATATCAGA
Statistics
Matches: 75, Mismatches: 17, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
4 4 0.05
5 61 0.81
6 10 0.13
ACGTcount: A:0.71, C:0.04, G:0.03, T:0.22
Consensus pattern (5 bp):
AAAAT
Found at i:754690 original size:12 final size:12
Alignment explanation
Indices: 754673--754704 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
754663 TTTGGAATTG
754673 AGCCTTCGCTTT
1 AGCCTTCGCTTT
754685 AGCCTTCGCTTT
1 AGCCTTCGCTTT
754697 AGCCTTCG
1 AGCCTTCG
754705 GCTTAAAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.09, C:0.34, G:0.19, T:0.38
Consensus pattern (12 bp):
AGCCTTCGCTTT
Found at i:758468 original size:131 final size:131
Alignment explanation
Indices: 758234--758490 Score: 397
Period size: 131 Copynumber: 2.0 Consensus size: 131
758224 TTTTAAGAGA
* * *
758234 GAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACATCTCATGCCTTAGAGAAGTCA
1 GAAAACGATAATATCTAATGATTTCCAATCGAGAATAAATGACATCCCATGCCTTAAAGAAGTCA
* * * *
758299 TTTATTATTCCAACCGGAATGAAAACATATCAATATTTCTTCTTAAAATTCAATATTGATTTGAA
66 TTTATTACTCCAACCGAAATGAAAACATATCAATATTTCGTCTTAAAAATCAATATTGATTTGAA
758364 T
131 T
* *
758365 GAAAACGATAATATCTAATGATTTCCAATCGAGAATAAATGACCTCCCATGCCTTAAAGCAGTCA
1 GAAAACGATAATATCTAATGATTTCCAATCGAGAATAAATGACATCCCATGCCTTAAAGAAGTCA
* * * *
758430 TTTATTACTCCAATCGAAATGAAGAGATATCACTATTTCGTCTTAAAAATCAATATTGATT
66 TTTATTACTCCAACCGAAATGAAAACATATCAATATTTCGTCTTAAAAATCAATATTGATT
758491 CGAGAAAAAC
Statistics
Matches: 113, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
131 113 1.00
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (131 bp):
GAAAACGATAATATCTAATGATTTCCAATCGAGAATAAATGACATCCCATGCCTTAAAGAAGTCA
TTTATTACTCCAACCGAAATGAAAACATATCAATATTTCGTCTTAAAAATCAATATTGATTTGAA
T
Found at i:758796 original size:17 final size:17
Alignment explanation
Indices: 758774--758815 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
758764 GAATATAGTG
*
758774 TGGTTTTTTTTCTTTTT
1 TGGTTTTTTTTCCTTTT
*
758791 TGG-TTTGTTTCCTTTT
1 TGGTTTTTTTTCCTTTT
758807 T-GTTTTTTT
1 TGGTTTTTTT
758816 CGAACCCCTT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
15 1 0.05
16 17 0.81
17 3 0.14
ACGTcount: A:0.00, C:0.07, G:0.14, T:0.79
Consensus pattern (17 bp):
TGGTTTTTTTTCCTTTT
Found at i:760979 original size:58 final size:59
Alignment explanation
Indices: 760889--761016 Score: 159
Period size: 58 Copynumber: 2.2 Consensus size: 59
760879 CGTAATGCAA
* * * * ** *
760889 TCCCGAGTATGACACATAAGGTCGTGTCCACCATCTGTACTAGGTATCC-TTAGTACAT
1 TCCCGAATATGACACATAAGGTCATGCCCACCATATACACTAGGAATCCTTTAGTACAT
**
760947 TCCCGAATATGACACATAAGGTCATGCCCACCATATACACTAGGAATCCTTTAGTGTAT
1 TCCCGAATATGACACATAAGGTCATGCCCACCATATACACTAGGAATCCTTTAGTACAT
*
761006 TCTCGAATATG
1 TCCCGAATATG
761017 CAGCCTTCTG
Statistics
Matches: 59, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
58 42 0.71
59 17 0.29
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (59 bp):
TCCCGAATATGACACATAAGGTCATGCCCACCATATACACTAGGAATCCTTTAGTACAT
Found at i:773243 original size:126 final size:127
Alignment explanation
Indices: 773041--773279 Score: 383
Period size: 126 Copynumber: 1.9 Consensus size: 127
773031 GAAAACGATA
* * *
773041 ATATCTAATTATTTCCAATCGAGAATAAATGACATCTCATGCCTTAGAGAAGTCATTTATTATTC
1 ATATCTAATGATTTCCAATCGAGAATAAATGACATCTCATGCCTTAAAGAAGTCATTTATTACTC
* *
773106 CAACCGGAATGAA-A-ATATCACTATTTCTTCTTAAAATTCAATATTGATTTGAATGAAAACG
66 CAACCGAAATGAAGAGATATCACTATTTCGTCTTAAAA-TCAATATTGATTTGAATGAAAACG
* *
773167 ATATCTAATGATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGCAGTCATTTATTACTC
1 ATATCTAATGATTTCCAATCGAGAATAAATGACATCTCATGCCTTAAAGAAGTCATTTATTACTC
*
773232 CAATCGAAATGAAGAGATATCACTATTTCGTCTTAAAATCAATATTGA
66 CAACCGAAATGAAGAGATATCACTATTTCGTCTTAAAATCAATATTGA
773280 CCCGATTAGG
Statistics
Matches: 103, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
126 71 0.69
127 11 0.11
128 21 0.20
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.34
Consensus pattern (127 bp):
ATATCTAATGATTTCCAATCGAGAATAAATGACATCTCATGCCTTAAAGAAGTCATTTATTACTC
CAACCGAAATGAAGAGATATCACTATTTCGTCTTAAAATCAATATTGATTTGAATGAAAACG
Found at i:778784 original size:16 final size:17
Alignment explanation
Indices: 778750--778789 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
778740 TTATATAAAC
*
778750 TGATATGTGTTTATATG
1 TGATATGTGATTATATG
*
778767 TGCTATGTGATT-TATG
1 TGATATGTGATTATATG
778783 TGATATG
1 TGATATG
778790 CCATATGTGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.23, C:0.03, G:0.25, T:0.50
Consensus pattern (17 bp):
TGATATGTGATTATATG
Found at i:780172 original size:13 final size:14
Alignment explanation
Indices: 780154--780182 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
780144 TTTTAAACGT
780154 ATAAATGTA-AATG
1 ATAAATGTATAATG
780167 ATAAATGTATAATG
1 ATAAATGTATAATG
780181 AT
1 AT
780183 GAACGTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.52, C:0.00, G:0.14, T:0.34
Consensus pattern (14 bp):
ATAAATGTATAATG
Found at i:783963 original size:13 final size:14
Alignment explanation
Indices: 783945--783973 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
783935 TTTTAAACGT
783945 ATAAATGTA-AATG
1 ATAAATGTATAATG
783958 ATAAATGTATAATG
1 ATAAATGTATAATG
783972 AT
1 AT
783974 GAACGTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.52, C:0.00, G:0.14, T:0.34
Consensus pattern (14 bp):
ATAAATGTATAATG
Found at i:788446 original size:21 final size:21
Alignment explanation
Indices: 788412--788452 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
788402 CAGATTGTGC
*
788412 AGGGGGTACAGATTTCCCCTG
1 AGGGGGTACAGATTCCCCCTG
788433 AGGGGGTATC-GATTCCCCCT
1 AGGGGGTA-CAGATTCCCCCT
788453 AAATGAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.17, C:0.27, G:0.32, T:0.24
Consensus pattern (21 bp):
AGGGGGTACAGATTCCCCCTG
Found at i:788909 original size:16 final size:17
Alignment explanation
Indices: 788875--788914 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
788865 TTATATAAAC
*
788875 TGATATGTGTTTATATG
1 TGATATGTGATTATATG
*
788892 TGCTATGTGATT-TATG
1 TGATATGTGATTATATG
788908 TGATATG
1 TGATATG
788915 CCATATGTGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.23, C:0.03, G:0.25, T:0.50
Consensus pattern (17 bp):
TGATATGTGATTATATG
Found at i:790417 original size:22 final size:21
Alignment explanation
Indices: 790376--790417 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
790366 ATAGTAGTAC
*
790376 TGTAGCAGGGTATCGATTCCA
1 TGTAGCAGGGAATCGATTCCA
*
790397 TGTAGCAGGGGAATCGGTTCC
1 TGTAGCA-GGGAATCGATTCC
790418 CCTCTTTGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.21, C:0.19, G:0.33, T:0.26
Consensus pattern (21 bp):
TGTAGCAGGGAATCGATTCCA
Found at i:791306 original size:28 final size:29
Alignment explanation
Indices: 791273--791336 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
791263 AGAAGAGTTC
791273 AAAATAAG-TACATGGATTATCAGTTCAT
1 AAAATAAGTTACATGGATTATCAGTTCAT
791301 AAAATAAGTTACATGGATTATCAGTTCAT
1 AAAATAAGTTACATGGATTATCAGTTCAT
791330 AAAATAA
1 AAAATAA
791337 ATGAAGCTTG
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 8 0.23
29 27 0.77
ACGTcount: A:0.47, C:0.09, G:0.12, T:0.31
Consensus pattern (29 bp):
AAAATAAGTTACATGGATTATCAGTTCAT
Found at i:792807 original size:15 final size:15
Alignment explanation
Indices: 792783--792816 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
792773 AAAGTTAGTT
*
792783 GAAAACTAAATGAAG
1 GAAAACTAAATAAAG
*
792798 GAAAATTAAATAAAG
1 GAAAACTAAATAAAG
792813 GAAA
1 GAAA
792817 CAACATGAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.65, C:0.03, G:0.18, T:0.15
Consensus pattern (15 bp):
GAAAACTAAATAAAG
Found at i:795474 original size:13 final size:14
Alignment explanation
Indices: 795456--795484 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
795446 TTTTAAACGT
795456 ATAAATGTA-AATG
1 ATAAATGTATAATG
795469 ATAAATGTATAATG
1 ATAAATGTATAATG
795483 AT
1 AT
795485 GAACGTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.52, C:0.00, G:0.14, T:0.34
Consensus pattern (14 bp):
ATAAATGTATAATG
Found at i:795571 original size:22 final size:21
Alignment explanation
Indices: 795530--795571 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
795520 ACGGAAGTAC
*
795530 TGTAGCAGGGTATCGATTCCA
1 TGTAGCAGGGAATCGATTCCA
*
795551 TGTAGCAGGGGAATCGGTTCC
1 TGTAGCA-GGGAATCGATTCC
795572 CCTCTTTGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.21, C:0.19, G:0.33, T:0.26
Consensus pattern (21 bp):
TGTAGCAGGGAATCGATTCCA
Found at i:797394 original size:30 final size:30
Alignment explanation
Indices: 797360--797419 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
797350 TCTTTGATTT
797360 TCAGTTCGAAATACAGATTTCGACTGAATC
1 TCAGTTCGAAATACAGATTTCGACTGAATC
797390 TCAGTTCGAAATACAGATTTCGACTGAATC
1 TCAGTTCGAAATACAGATTTCGACTGAATC
797420 CCTGTTTGGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (30 bp):
TCAGTTCGAAATACAGATTTCGACTGAATC
Found at i:797475 original size:30 final size:30
Alignment explanation
Indices: 797374--797475 Score: 107
Period size: 30 Copynumber: 3.4 Consensus size: 30
797364 TTCGAAATAC
* * * * **
797374 AGATTTCGACTGAATCTCAGTTCGAAATAC
1 AGATTTCGACTGAATCCCTGTTTGGAATTG
797404 AGATTTCGACTGAATCCCTGTTTGGAATTG
1 AGATTTCGACTGAATCCCTGTTTGGAATTG
* *
797434 AGAATTCGACTGAATCCCTGTTT-GACTTCG
1 AGATTTCGACTGAATCCCTGTTTGGAATT-G
*
797464 AGATTTTGACTG
1 AGATTTCGACTG
797476 GACCTCCGAT
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
29 4 0.07
30 57 0.93
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (30 bp):
AGATTTCGACTGAATCCCTGTTTGGAATTG
Found at i:797518 original size:30 final size:30
Alignment explanation
Indices: 797433--797518 Score: 84
Period size: 30 Copynumber: 2.9 Consensus size: 30
797423 GTTTGGAATT
* * *
797433 GAGAATTCGACTGAATCC-CTGTTTGACTTC
1 GAGAATTCGACTGAA-CCTCAGATCGACTTC
* * * *
797463 GAGATTTTGACTGGACCTCCGATCGACTTC
1 GAGAATTCGACTGAACCTCAGATCGACTTC
*
797493 GAGAATTCGACTGAACCTCATATCGA
1 GAGAATTCGACTGAACCTCAGATCGA
797519 TTGGTGGAAT
Statistics
Matches: 44, Mismatches: 11, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
29 2 0.05
30 42 0.95
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (30 bp):
GAGAATTCGACTGAACCTCAGATCGACTTC
Found at i:800556 original size:16 final size:16
Alignment explanation
Indices: 800535--800570 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
800525 GTAATAATAT
800535 ATATAATAATATTAAA
1 ATATAATAATATTAAA
*
800551 ATATAATAATATTAAT
1 ATATAATAATATTAAA
800567 ATAT
1 ATAT
800571 GGAAAAGTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
ATATAATAATATTAAA
Found at i:800989 original size:31 final size:30
Alignment explanation
Indices: 800944--801054 Score: 116
Period size: 30 Copynumber: 3.7 Consensus size: 30
800934 AGAAAGAAGA
*
800944 TCAACTTGCCTTCTTTTTGGAATCACCAAC
1 TCAACTTGCCTTCTTTATGGAATCACCAAC
* * *
800974 TCAACTTGGCCTTCTTTATGGGATCATCATC
1 TCAACTT-GCCTTCTTTATGGAATCACCAAC
* * *
801005 TCTACTTGCCTTCTTTAT-GAGATCATCACC
1 TCAACTTGCCTTCTTTATGGA-ATCACCAAC
* *
801035 CCTACTTGCCTTCTTTATGG
1 TCAACTTGCCTTCTTTATGG
801055 GATCCCCCAT
Statistics
Matches: 70, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
29 1 0.01
30 43 0.61
31 26 0.37
ACGTcount: A:0.19, C:0.29, G:0.13, T:0.40
Consensus pattern (30 bp):
TCAACTTGCCTTCTTTATGGAATCACCAAC
Found at i:803104 original size:30 final size:30
Alignment explanation
Indices: 803068--803142 Score: 116
Period size: 30 Copynumber: 2.5 Consensus size: 30
803058 GAATTTGAGA
803068 AGAACCCGGCTGAATTCCAGGTTGAAATTG
1 AGAACCCGGCTGAATTCCAGGTTGAAATTG
* *
803098 AGAACCCGACTGAATTCCTGGTTGAAATTG
1 AGAACCCGGCTGAATTCCAGGTTGAAATTG
*
803128 AGGACCC-GCTGAATT
1 AGAACCCGGCTGAATT
803143 TCACAATAGA
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
29 7 0.17
30 34 0.83
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.24
Consensus pattern (30 bp):
AGAACCCGGCTGAATTCCAGGTTGAAATTG
Found at i:804690 original size:16 final size:16
Alignment explanation
Indices: 804658--804690 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
804648 TTGAAACTCG
*
804658 ACTCGAACTCGAAAAA
1 ACTCGAACTCAAAAAA
804674 ACTCGAACTCAAAAAA
1 ACTCGAACTCAAAAAA
804690 A
1 A
804691 AATTCAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.55, C:0.24, G:0.09, T:0.12
Consensus pattern (16 bp):
ACTCGAACTCAAAAAA
Found at i:804749 original size:35 final size:36
Alignment explanation
Indices: 804710--804787 Score: 99
Period size: 35 Copynumber: 2.2 Consensus size: 36
804700 ACTCGACCGA
*
804710 AGCTCGAGA-TTT-AGCTCGATTAAAGCTCGATTTTG
1 AGCTCGA-ACTTTGAGCTCGATTAAAGCTCGACTTTG
*
804745 AGCTC-AACTTTGAGCTCGATTCAAGCTCGACTTTG
1 AGCTCGAACTTTGAGCTCGATTAAAGCTCGACTTTG
*
804780 AACTCGAA
1 AGCTCGAA
804788 TCAGGCTTGA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
33 1 0.03
34 4 0.11
35 30 0.81
36 2 0.05
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.31
Consensus pattern (36 bp):
AGCTCGAACTTTGAGCTCGATTAAAGCTCGACTTTG
Found at i:804771 original size:23 final size:23
Alignment explanation
Indices: 804745--804820 Score: 98
Period size: 23 Copynumber: 3.3 Consensus size: 23
804735 CTCGATTTTG
804745 AGCTCAACTTTGAGCTCGATTCA
1 AGCTCAACTTTGAGCTCGATTCA
* * *
804768 AGCTCGACTTTGAACTCGAATCA
1 AGCTCAACTTTGAGCTCGATTCA
* **
804791 GGCTTGACTTTGAGCTCGATTCA
1 AGCTCAACTTTGAGCTCGATTCA
804814 AGCTCAA
1 AGCTCAA
804821 AAACGGGTTA
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (23 bp):
AGCTCAACTTTGAGCTCGATTCA
Found at i:806550 original size:7 final size:7
Alignment explanation
Indices: 806535--806564 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
806525 GTAAGTATAA
806535 TTTAGGG
1 TTTAGGG
*
806542 TTTAAGG
1 TTTAGGG
806549 TTTAGGG
1 TTTAGGG
806556 TTTAGGG
1 TTTAGGG
806563 TT
1 TT
806565 CATTGTAATG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (7 bp):
TTTAGGG
Found at i:806627 original size:11 final size:11
Alignment explanation
Indices: 806611--806673 Score: 55
Period size: 11 Copynumber: 5.9 Consensus size: 11
806601 GTATTATAGA
806611 ATTTTTAATAT
1 ATTTTTAATAT
806622 ATTTTT-A-A-
1 ATTTTTAATAT
806630 ATTTTT-ATA-
1 ATTTTTAATAT
*
806639 ATTTTCAATAGTGT
1 ATTTTTAATA---T
806653 ATTTTTAATAT
1 ATTTTTAATAT
806664 ATTTTTAATA
1 ATTTTTAATA
806674 ATGAAATTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
8 7 0.16
9 7 0.16
10 4 0.09
11 17 0.39
14 9 0.20
ACGTcount: A:0.35, C:0.02, G:0.03, T:0.60
Consensus pattern (11 bp):
ATTTTTAATAT
Found at i:806683 original size:25 final size:24
Alignment explanation
Indices: 806628--806685 Score: 62
Period size: 25 Copynumber: 2.4 Consensus size: 24
806618 ATATATTTTT
* *
806628 AAATTTTTATAATTTTCAATAGTG
1 AAATTTTAATAATTTTCAATAATG
* * *
806652 TATTTTTAATATATTTTTAATAATG
1 AAATTTTAATA-ATTTTCAATAATG
806677 AAATTTTAA
1 AAATTTTAA
806686 AAAATCTAAA
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
24 8 0.31
25 18 0.69
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (24 bp):
AAATTTTAATAATTTTCAATAATG
Found at i:807152 original size:16 final size:16
Alignment explanation
Indices: 807127--807159 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
807117 TTAGAATCTG
807127 TAAAGAAATTGAAATC
1 TAAAGAAATTGAAATC
*
807143 TAAAGGAATTGAAATC
1 TAAAGAAATTGAAATC
807159 T
1 T
807160 GAATCTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.52, C:0.06, G:0.15, T:0.27
Consensus pattern (16 bp):
TAAAGAAATTGAAATC
Found at i:810829 original size:23 final size:23
Alignment explanation
Indices: 810782--810831 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
810772 AATAACATAT
**
810782 TAGGTAGCGCTTATATAATGTAA
1 TAGGTAGCGCTTATATAATAAAA
810805 TAGGTAGCGCTTATATAATAAAA
1 TAGGTAGCGCTTATATAATAAAA
810828 TAGG
1 TAGG
810832 CATTTAACCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.38, C:0.08, G:0.22, T:0.32
Consensus pattern (23 bp):
TAGGTAGCGCTTATATAATAAAA
Found at i:812889 original size:34 final size:32
Alignment explanation
Indices: 812829--812898 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
812819 CCTTACAAAC
*
812829 TCCCTAGTTTTCCCGGGATAAACTAGAACCTT
1 TCCCTAGTTTTCACGGGATAAACTAGAACCTT
* *
812861 TCCCTAGCTTTTACACGGGATTAGCTAGAACCTT
1 TCCCTAG-TTTT-CACGGGATAAACTAGAACCTT
812895 TCCC
1 TCCC
812899 CTTTACAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 7 0.21
33 4 0.12
34 22 0.67
ACGTcount: A:0.23, C:0.30, G:0.16, T:0.31
Consensus pattern (32 bp):
TCCCTAGTTTTCACGGGATAAACTAGAACCTT
Found at i:813440 original size:29 final size:31
Alignment explanation
Indices: 813408--813467 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 31
813398 AAATTTTGAA
*
813408 TAAATTCAATT-AAGTCCAAATA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
813437 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
813468 CCTTAAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 10 0.36
31 7 0.25
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.35
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTG
Found at i:815669 original size:34 final size:32
Alignment explanation
Indices: 815609--815678 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
815599 CCTTACAAAC
*
815609 TCCCTAGTTTTTCCGGGATAAACTAGAACCTT
1 TCCCTAGTTTTACCGGGATAAACTAGAACCTT
* *
815641 TCCCTAGCTTTTACACGGGATTAGCTAGAACCTT
1 TCCCTAG-TTTTAC-CGGGATAAACTAGAACCTT
815675 TCCC
1 TCCC
815679 CTTTACAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 7 0.21
33 5 0.15
34 21 0.64
ACGTcount: A:0.23, C:0.29, G:0.16, T:0.33
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGATAAACTAGAACCTT
Found at i:815987 original size:21 final size:21
Alignment explanation
Indices: 815961--816002 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
815951 CCAAAATGGG
*
815961 GGGAATCGGTACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
815982 GGGAATCGATACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
816003 ATATTCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:816253 original size:29 final size:31
Alignment explanation
Indices: 816221--816280 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 31
816211 AAATTTTGAA
*
816221 TAAATTCAATT-AAGTCCAAATA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
816250 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
816281 CCTTAAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 10 0.36
31 7 0.25
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.35
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTG
Found at i:818166 original size:199 final size:198
Alignment explanation
Indices: 817765--818604 Score: 1078
Period size: 199 Copynumber: 4.2 Consensus size: 198
817755 AGACATTTGG
* * *
817765 TTATAATTATGTTTTTCGATGTTTTTGGGATCGATAATTGTTATAAATGTATCGAAACTTTGTT-
1 TTATAATTATG-TTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGAAA-TTTTTTA
* * * * *
817829 GTGCACTTGGTTTTTAAAATATAGTCTAGACAAAAATGTATCGAAACTTGATGTATTTGTGTCGA
64 GTGCACTTGG-TTTTAAAATACAGTCTGGACAAAAA-GTATCGACACTTGTTATATTTGTGTCGA
** * * * *
817894 TACTTCATGTATACATGTTTTCTCATAAACCGGTACATTTAGACCAG-TTACATTGTTAATTTAC
127 TACTTTTTGTACACATGTTTTCTCAAAAACCGGTATATTTAGACC-GTTTACATTGATAATTTAC
817958 CTATTACA
191 CTATTACA
817966 TTATAATTATAGTTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGAAATTTTTTAG
1 TTATAATTAT-GTTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGAAATTTTTTAG
* * * *
818031 TGCACTTGGTTTTGAAATACAGTCTGGAGAAAAAGTATTGACGCTTGTTATATTTGTGTCGATAC
65 TGCACTTGGTTTTAAAATACAGTCTGGACAAAAAGTATCGACACTTGTTATATTTGTGTCGATAC
818096 TTTTTGTACACATGTTTTCTCAAAAACCGGTATATTTAGACCGTTTACA-TGAATAATTTACCTA
130 TTTTTGTACACATGTTTTCTCAAAAACCGGTATATTTAGACCGTTTACATTG-ATAATTTACCTA
818160 TTACA
194 TTACA
* * * * * *
818165 TTATAATTATATTTTTCGATGTTTTCGGGATCGACACTTGTTTTAAATGTATCCACA-CTTTTAT
1 TTATAATTAT-GTTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGAAATTTTTTA-
* * * *
818229 GTGCACTTGGTTCTAAAATACATTCTGGACCAAAAGTATCGACACTTGTTCTATTTGTGTCGATA
64 GTGCACTTGGTTTTAAAATACAGTCTGGACAAAAAGTATCGACACTTGTTATATTTGTGTCGATA
* * * * *
818294 CTGTTTGTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGGTTATATTGCTAATTTACCTA
129 CTTTTTGTACACATGTTTTCTCAAAAACCGGTATATTTAGACCGTTTACATTGATAATTTACCTA
818359 TTACA
194 TTACA
* * * * * *
818364 TTATAATTATGGTTTTTGACGTTTTTTGGATCGACACTTGTTATATATGTATCGACACTTTTTAG
1 TTATAATTAT-GTTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGAAATTTTTTAG
* * * * *
818429 TGCACTTGGTTTTGAAATACAGTCTGGAGAAAAAGTATCGACACTTGTTAGATTTGTGTCAATAA
65 TGCACTTGGTTTTAAAATACAGTCTGGACAAAAAGTATCGACACTTGTTATATTTGTGTCGATAC
* * * **
818494 TTTTTGTACACCTTTTTTCTCAAAAACCGGTATATTTATACATTTTACA-TGAATAATTTACCTA
130 TTTTTGTACACATGTTTTCTCAAAAACCGGTATATTTAGACCGTTTACATTG-ATAATTTACCTA
818558 TTACA
194 TTACA
* *
818563 TTATAATTATGTTTTTCGATATTTTCGGGATCGACACTTGTT
1 TTATAATTATG-TTTTCGATGTTTTTGGGATCGACACTTGTT
818605 TTATTTGTGT
Statistics
Matches: 561, Mismatches: 69, Indels: 20
0.86 0.11 0.03
Matches are distributed among these distances:
198 11 0.02
199 453 0.81
200 33 0.06
201 63 0.11
202 1 0.00
ACGTcount: A:0.28, C:0.14, G:0.15, T:0.42
Consensus pattern (198 bp):
TTATAATTATGTTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGAAATTTTTTAGT
GCACTTGGTTTTAAAATACAGTCTGGACAAAAAGTATCGACACTTGTTATATTTGTGTCGATACT
TTTTGTACACATGTTTTCTCAAAAACCGGTATATTTAGACCGTTTACATTGATAATTTACCTATT
ACA
Found at i:818503 original size:398 final size:400
Alignment explanation
Indices: 817765--818607 Score: 1271
Period size: 398 Copynumber: 2.1 Consensus size: 400
817755 AGACATTTGG
* * * * *
817765 TTATAATTATGTTTTTCGATGTTTTTGGGATCGATAATTGTTATAAATGTATCGAAACTTTGTTG
1 TTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTAAATGTATCCAAACTTTGTTG
* * *
817830 TGCACTTGGTTTTTAAAATATAGTCTAGACAAAAATGTATCGAAACTTGATGTATTTGTGTCGAT
66 TGCACTTGGTTTCTAAAATACAGTCTAGACAAAAATGTATCGAAACTTGATCTATTTGTGTCGAT
* * *
817895 ACTTCATGTATACATGTTTTCTCATAAACCGGTACATTTAGACCAGTTACATTGTTAATTTACCT
131 ACTTCATGTACACATGTTTTCTCAAAAACCGGTACATTTAGACCAGTTACATTGCTAATTTACCT
* *
817960 ATTACATTATAATTATAGTTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGAAATT
196 ATTACATTATAATTATAGTTTTCGACGTTTTTGGGATCGACACTTGTTATAAATGTATCGAAACT
* * *
818025 TTTTAGTGCACTTGGTTTTGAAATACAGTCTGGAGAAAAAGTATTGACGCTTGTTATATTTGTGT
261 TTTTAGTGCACTTGGTTTTGAAATACAGTCTGGAGAAAAAGTATCGACACTTGTTAGATTTGTGT
* * *
818090 CGATACTTTTTGTACACATGTTTTCTCAAAAACCGGTATATTTAGACCGTTTACATGAATAATTT
326 CAATAATTTTTGTACACATGTTTTCTCAAAAACCGGTATATTTAGACAGTTTACATGAATAATTT
818155 ACCTATTACA
391 ACCTATTACA
* *
818165 TTATAATTATATTTTTCGATGTTTTCGGGATCGACACTTGTTTTAAATGTATCCACACTTT-TAT
1 TTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTAAATGTATCCAAACTTTGT-T
* * * * *
818229 GTGCACTTGG-TTCTAAAATACATTCTGGACCAAAA-GTATCGACACTTGTTCTATTTGTGTCGA
65 GTGCACTTGGTTTCTAAAATACAGTCTAGACAAAAATGTATCGAAACTTGATCTATTTGTGTCGA
* * * * *
818292 TACTGT-TTGTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGGTTATATTGCTAATTTAC
130 TACT-TCATGTACACATGTTTTCTCAAAAACCGGTACATTTAGACCAGTTACATTGCTAATTTAC
* * * * *
818356 CTATTACATTATAATTATGGTTTTTGACGTTTTTTGGATCGACACTTGTTATATATGTATCGACA
194 CTATTACATTATAATTATAGTTTTCGACGTTTTTGGGATCGACACTTGTTATAAATGTATCGAAA
818421 CTTTTTAGTGCACTTGGTTTTGAAATACAGTCTGGAGAAAAAGTATCGACACTTGTTAGATTTGT
259 CTTTTTAGTGCACTTGGTTTTGAAATACAGTCTGGAGAAAAAGTATCGACACTTGTTAGATTTGT
* * * *
818486 GTCAATAATTTTTGTACACCTTTTTTCTCAAAAACCGGTATATTTATACATTTTACATGAATAAT
324 GTCAATAATTTTTGTACACATGTTTTCTCAAAAACCGGTATATTTAGACAGTTTACATGAATAAT
818551 TTACCTATTACA
389 TTACCTATTACA
*
818563 TTATAATTATGTTTTTCGATATTTTCGGGATCGACACTTGTTTTA
1 TTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTA
818608 TTTGTGTCGA
Statistics
Matches: 399, Mismatches: 42, Indels: 6
0.89 0.09 0.01
Matches are distributed among these distances:
398 312 0.78
399 22 0.06
400 65 0.16
ACGTcount: A:0.28, C:0.14, G:0.15, T:0.42
Consensus pattern (400 bp):
TTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTAAATGTATCCAAACTTTGTTG
TGCACTTGGTTTCTAAAATACAGTCTAGACAAAAATGTATCGAAACTTGATCTATTTGTGTCGAT
ACTTCATGTACACATGTTTTCTCAAAAACCGGTACATTTAGACCAGTTACATTGCTAATTTACCT
ATTACATTATAATTATAGTTTTCGACGTTTTTGGGATCGACACTTGTTATAAATGTATCGAAACT
TTTTAGTGCACTTGGTTTTGAAATACAGTCTGGAGAAAAAGTATCGACACTTGTTAGATTTGTGT
CAATAATTTTTGTACACATGTTTTCTCAAAAACCGGTATATTTAGACAGTTTACATGAATAATTT
ACCTATTACA
Found at i:822293 original size:200 final size:199
Alignment explanation
Indices: 821608--822309 Score: 1217
Period size: 199 Copynumber: 3.5 Consensus size: 199
821598 TTTTCAATTT
*
821608 AAACCGGTATATTTAGACCAGTTATATTGTTAATTTACCTATTATATTATAATTATGGTTTTCGA
1 AAACCGGTATATTTAGACCAGTTATATTGTTAATTTACCTATTACATTATAATTATGGTTTTCGA
*
821673 TTTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
66 TGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
*
821738 CATTCTGGACCAAAAGTATCGACACTTGTTCGATTTGTGTCGATACTTTTTGTACACCGGTTTTC
131 CATTCTGGACCAAAAGTATCGACACTTGTTCGATTTGTGTCGATACTTTTTGTACACCTGTTTTC
821803 TCAA
196 TCAA
* * * *
821807 AAATCGGTATATTTAGACCGGTTATATTGCTAATTTACCTATTACATTATAATTATAGTTTTCGA
1 AAACCGGTATATTTAGACCAGTTATATTGTTAATTTACCTATTACATTATAATTATGGTTTTCGA
*
821872 TGTTTTTGGGATCGACACTTGTTACAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
66 TGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
* * *
821937 CATTCTGGACAAAAAGTATCGATACTTGTTCGATTTGTGTCGATACTTTTTGTATACCTGTTTTC
131 CATTCTGGACCAAAAGTATCGACACTTGTTCGATTTGTGTCGATACTTTTTGTACACCTGTTTTC
822002 TCAA
196 TCAA
* *
822006 AAACTGGTATATTTAGACCGGTTATATTGTTAATTTACCTATTACATTATAATTATGGTTTTCGA
1 AAACCGGTATATTTAGACCAGTTATATTGTTAATTTACCTATTACATTATAATTATGGTTTTCGA
*
822071 TGTTTTTGGGATTGACACTTGTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
66 TGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
* * * *
822136 CATTCTGGACCAAAAGTATCGACACTTGTTTGATTTGTGTTGATACTTTTTTTACACCTTTTTTT
131 CATTCTGGACCAAAAGTATCGACACTTGTTCGATTTGTGTCGATACTTTTTGTACACC-TGTTTT
822201 CTCAA
195 CTCAA
822206 AAACCGGTATATTTAGACCAGTTATATT-TCTAATTTACCTATTACATTATAATTATGGTTTTCG
1 AAACCGGTATATTTAGACCAGTTATATTGT-TAATTTACCTATTACATTATAATTATGGTTTTCG
822270 ATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACAC
65 ATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACAC
822310 ATAAGTTTAC
Statistics
Matches: 474, Mismatches: 27, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
199 365 0.77
200 109 0.23
ACGTcount: A:0.27, C:0.14, G:0.16, T:0.43
Consensus pattern (199 bp):
AAACCGGTATATTTAGACCAGTTATATTGTTAATTTACCTATTACATTATAATTATGGTTTTCGA
TGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
CATTCTGGACCAAAAGTATCGACACTTGTTCGATTTGTGTCGATACTTTTTGTACACCTGTTTTC
TCAA
Found at i:822650 original size:19 final size:19
Alignment explanation
Indices: 822626--822674 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
822616 TTACATTCAC
822626 ATACAAAATTATAAA-TCGT
1 ATACAAAATTA-AAACTCGT
*
822645 ATACAAAATTAAAACTCTT
1 ATACAAAATTAAAACTCGT
822664 ATAC-AAATTAA
1 ATACAAAATTAA
822675 CCATGCATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 10 0.36
19 18 0.64
ACGTcount: A:0.55, C:0.12, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTAAAACTCGT
Found at i:824863 original size:22 final size:21
Alignment explanation
Indices: 824835--824890 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 21
824825 AACCTGCATT
*
824835 TATAATAAAAGTTATCATTTTA
1 TATAATAAAA-CTATCATTTTA
824857 TATAATAACTATACTATCATTTTA
1 TATAATAA--A-ACTATCATTTTA
824881 TATAA-AAAAC
1 TATAATAAAAC
824891 AAAAACATTC
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
20 2 0.07
21 1 0.03
22 8 0.27
23 2 0.07
24 16 0.53
25 1 0.03
ACGTcount: A:0.48, C:0.09, G:0.02, T:0.41
Consensus pattern (21 bp):
TATAATAAAACTATCATTTTA
Found at i:825878 original size:18 final size:18
Alignment explanation
Indices: 825855--825893 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
825845 TACTGTCAAC
825855 ATTTAAAATTTGTAA-TCA
1 ATTTAAAATTT-TAAGTCA
*
825873 ATTTAAAGTTTTAAGTCA
1 ATTTAAAATTTTAAGTCA
825891 ATT
1 ATT
825894 ACCATTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 3 0.16
18 16 0.84
ACGTcount: A:0.41, C:0.05, G:0.08, T:0.46
Consensus pattern (18 bp):
ATTTAAAATTTTAAGTCA
Found at i:826016 original size:5 final size:5
Alignment explanation
Indices: 826006--826030 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
825996 TCAGTTTGCG
826006 CAAAT CAAAT CAAAT CAAAT CAAAT
1 CAAAT CAAAT CAAAT CAAAT CAAAT
826031 ACTGCTTACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.20, G:0.00, T:0.20
Consensus pattern (5 bp):
CAAAT
Found at i:826192 original size:19 final size:20
Alignment explanation
Indices: 826145--826193 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
826135 CATTTATAGA
826145 ACCTA-AAATATCATTTTCT
1 ACCTATAAATATCATTTTCT
826164 ACCTAT-AATATCATTTT-T
1 ACCTATAAATATCATTTTCT
826182 ACCTATAAATAT
1 ACCTATAAATAT
826194 TAACTAAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
18 7 0.25
19 21 0.75
ACGTcount: A:0.39, C:0.18, G:0.00, T:0.43
Consensus pattern (20 bp):
ACCTATAAATATCATTTTCT
Found at i:826800 original size:164 final size:165
Alignment explanation
Indices: 826584--827795 Score: 687
Period size: 164 Copynumber: 7.0 Consensus size: 165
826574 CTTATTAAAG
* * * **
826584 TATCGACACTTTCAACATATCCGGTATCTATTTACCGGTTTTGTCA-TTTTGAGACCGGTTTTAT
1 TATCGACACTTTCAACATATCCGGTA-ATATTTTCTGGTTTTGTCATTTTTGAGACCTATTTTAT
* * *
826648 CATATTTTTACCTGTAATATTGTTCTGGATCGATACATTTTCATAAAGTATCGATACTTTTTAAG
65 CATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTATCGACACTTTTTAAG
826713 CGCTATAACTTCTTCTCTTTTAAATTCAGA-AACAT
130 CGCTATAACTTCTTCTCTTTTAAATTCAGATAACAT
*
826748 TATCGACACTTTCAACATATTCGGTAATATTTTCTGGTTTTGTCATTTTTGAGACCTATTTTATC
1 TATCGACACTTTCAACATATCCGGTAATATTTTCTGGTTTTGTCATTTTTGAGACCTATTTTATC
* * * * *
826813 ATATTTTTACCTGTTATATTGGTAAGGATCGATACATTTTAATAAAGTGTTGACACTTTTTAAGC
66 ATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTATCGACACTTTTTAAGC
*
826878 TCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTAATATTAAAT
131 GCTATAACTTCTTCTCTTTTAAATTCAG--A---T--A-AC---------AT
* * * * * *
826930 TATCGACACTTTCAATATATTCGGTAACTTTTTTC-GGTTTTGTCTTTTTTTTAGACCAATTTTA
1 TATCGACACTTTCAACATATCCGGTAA-TATTTTCTGGTTTTGTC-ATTTTTGAGACCTATTTTA
* * *
826994 TCATATTTTTACCTATTATATTGTTATGGATCGATACATTTTCATAAAATGTCGACACTTTTT-A
64 TCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTATCGACACTTTTTAA
* * ***** ** * *
827058 --G-TTTAATTTCAGAAAATGTCGATACTT-ATATTAA-AT
129 GCGCTATAACTTC-TTCTCT-TTTA-AATTCAGA-TAACAT
* * * * *
827094 TATCAACACTTTCAACATATCCGGT-ATCGTTTTACTGGTTTTGTCAATTTT-AGGACATGTTTT
1 TATCGACACTTTCAACATATCCGGTAAT-ATTTT-CTGGTTTTGTCATTTTTGA-GACCTATTTT
* * ** *
827157 ATCATATTTTTACCTGTTATATTGTTGTGGATCGATA-TTTTTTTTAAAGTATCGACACTTTATA
63 ATCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTATCGACACTTTTTA
* *
827221 GGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTTTCGATACTT
128 AGCGCTATAACTTCTTCTCTTTTAAATTCAG--A---T--A-ACAT
* ** *
827267 ATATC-A-AATTATCGACACTTTCAATATATCCGGTAGCATTTTACTGGTTTTGTCAATTTTGAG
1 -TATCGACACTT-TC-A-A----C-ATAT--CCGGTAATATTTT-CTGGTTTTGTCATTTTTGAG
* * ** * *
827330 ACATGTTTTATCATATTTTTATATGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCAA
54 ACCTATTTTATCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTATCGA
* * *
827395 CACTTTTTAAGCGCAATAACTTTTTCTCTTTTAAATTCAG--AA-AG
119 CACTTTTTAAGCGCTATAACTTCTTCTCTTTTAAATTCAGATAACAT
* * * ** ** *
827439 TGTCGATACTTAT-ATTAAATTATCGACACTTTTAACATATCCGATAACT-TTTTTCGGTTTTGT
1 TATCGACACTT-TCA--ACA-TAT---C-C-GGT-A-ATAT----TTTCTGGTTTT--G---T--
* * *
827502 CATTTTTGAGACCT-GTTTATCATATTTTTACCTGTTATATTGGTAAGGATCGATACATTTTCAT
44 CATTTTTGAGACCTATTTTATCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCAT
* *
827566 AAAGTGTCGACACTTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTA
109 AAAGTATCGACACTTTTTAAGCGCTATAACTTCTTCTCTTTTAAATTCAG--A---T--A-AC--
827631 ATATTAAAT
164 -------AT
* *
827640 TATCGACACTTTCAATATATCCGGTAACT-TTTTCAT-GTTTTGTCATTTTTTAGACC-AGTTTT
1 TATCGACACTTTCAACATATCCGGTAA-TATTTTC-TGGTTTTGTCATTTTTGAGACCTA-TTTT
* * * * * *
827702 ATCATATTTTTGCCTGTTATATTGTTGTGGATCGATATATTTT-TTAAAAATATCGACACTTTAT
63 ATCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCAT-AAAGTATCGACACTTTTT
*
827766 AGGCGCTATAA---CTTCTCTTTTAAATTCAGA
127 AAGCGCTATAACTTCTTCTCTTTTAAATTCAGA
827796 AAATTTCGAT
Statistics
Matches: 816, Mismatches: 131, Indels: 189
0.72 0.12 0.17
Matches are distributed among these distances:
162 1 0.00
163 42 0.05
164 200 0.25
165 12 0.01
166 3 0.00
167 9 0.01
168 3 0.00
169 3 0.00
170 1 0.00
171 6 0.01
172 8 0.01
173 14 0.02
174 7 0.01
175 6 0.01
176 2 0.00
177 4 0.00
179 27 0.03
180 6 0.01
181 107 0.13
182 191 0.23
183 130 0.16
186 1 0.00
187 2 0.00
188 5 0.01
190 1 0.00
191 3 0.00
192 2 0.00
193 1 0.00
194 1 0.00
195 1 0.00
198 3 0.00
199 2 0.00
200 1 0.00
201 11 0.01
ACGTcount: A:0.28, C:0.15, G:0.12, T:0.45
Consensus pattern (165 bp):
TATCGACACTTTCAACATATCCGGTAATATTTTCTGGTTTTGTCATTTTTGAGACCTATTTTATC
ATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTATCGACACTTTTTAAGC
GCTATAACTTCTTCTCTTTTAAATTCAGATAACAT
Found at i:827361 original size:346 final size:348
Alignment explanation
Indices: 826576--827923 Score: 1365
Period size: 346 Copynumber: 3.8 Consensus size: 348
826566 TACGCGTACT
* * * *
826576 TATTAAAGTATCGACACTTTCAACATATCCGGTATCTATTTACCGGTTTTGTC-ATTTTGAGACC
1 TATTAAATTATCGACACTTTCAATATATCCGGTAACT-TTTACTGGTTTTGTCAATTTTGAGACC
* * * * *
826640 GGTTTTATCATATTTTTACCTGTAATATTGTTCTGGATCGATACATTTTCATAAAGTATCGATAC
65 AGTTTTATCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAATATCGACAC
* * * ***** ** * *
826705 TTTTTAAGCGCTATAACTTC-TTCTCT-TTTA-AATTCAGA--AACATTATCGACACTTTCAACA
130 TTTTTAA-CGTTTTAAATTCAGAAAATGTCGATACTT-ATATTAA-ATTATCGACACTTTCAACA
* *
826765 TATTCGGTAAT-ATTTTCTGGTTTTGTCATTTTTGAGACCTATTTTATCATATTTTTACCTGTTA
192 TATCCGGT-ATCATTTTCTGGTTTTGTCATTTTTGAGACCTGTTTTATCATATTTTTACCTGTTA
* * *
826829 TATTGGTAAGGATCGATACATTTTAATAAAGTGTTGACACTTTTTAAGCTCTATAACTTCTTCTC
256 TATTGGTAAGGATCGATACATTTTAATAAAGTGTCGACACTTTTTAGGCGCTATAACTTCTTCTC
826894 TTTTAAATTCAGAAAGTGTCGATACTAA
321 TTTTAAATTCAGAAAGTGTCGATACTAA
* * ** *
826922 TATTAAATTATCGACACTTTCAATATATTCGGTAACTTTT-TTCGGTTTTGTCTTTTTTTTAGAC
1 TATTAAATTATCGACACTTTCAATATATCCGGTAACTTTTACT-GGTTTTGTC-AATTTTGAGAC
* * *
826986 CAATTTTATCATATTTTTACCTATTATATTGTTATGGATCGATACATTTTCATAAAATGTCGACA
64 CAGTTTTATCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAATATCGACA
* *
827051 CTTTTT-A-G-TTTAATTTCAGAAAATGTCGATACTTATATTAAATTATCAACACTTTCAACATA
129 CTTTTTAACGTTTTAAATTCAGAAAATGTCGATACTTATATTAAATTATCGACACTTTCAACATA
* * *
827113 TCCGGTATCGTTTTACTGGTTTTGTCAATTTT-AGGACATGTTTTATCATATTTTTACCTGTTAT
194 TCCGGTATCATTTT-CTGGTTTTGTCATTTTTGA-GACCTGTTTTATCATATTTTTACCTGTTAT
* ** * ** * *
827177 ATTGTTGTGGATCGATA-TTTTTTTTAAAGTATCGACACTTTATAGGCGCTATAACTTCTTCTCT
257 ATTGGTAAGGATCGATACATTTTAATAAAGTGTCGACACTTTTTAGGCGCTATAACTTCTTCTCT
* *
827241 TTTAAATTCAGAAAGTTTCGATACTTA
322 TTTAAATTCAGAAAGTGTCGATACTAA
* *
827268 TATCAAATTATCGACACTTTCAATATATCCGGTAGCATTTTACTGGTTTTGTCAATTTTGAGA-C
1 TATTAAATTATCGACACTTTCAATATATCCGGTAAC-TTTTACTGGTTTTGTCAATTTTGAGACC
** * * *
827332 ATGTTTTATCATATTTTTATATGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCAACA
65 A-GTTTTATCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAATATCGACA
*
827397 CTTTTTAAGCGCAATAACTTTTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTAT
129 CTTTTTAA-CG---------------TTTTAAATTCAGAAAATGTCGATACTTATATTAAATTAT
* * * *
827462 CGACACTTTTAACATATCCGATAAC-TTTTTTCGGTTTTGTCATTTTTGAGACCTG-TTTATCAT
178 CGACACTTTCAACATATCCGGTATCATTTTCT-GGTTTTGTCATTTTTGAGACCTGTTTTATCAT
*
827525 ATTTTTACCTGTTATATTGGTAAGGATCGATACATTTTCATAAAGTGTCGACACTTTTTAGGCGC
242 ATTTTTACCTGTTATATTGGTAAGGATCGATACATTTTAATAAAGTGTCGACACTTTTTAGGCGC
827590 TATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTAA
307 TATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTAA
* * *
827632 TATTAAATTATCGACACTTTCAATATATCCGGTAACTTTTTCAT-GTTTTGTCATTTTTTAGACC
1 TATTAAATTATCGACACTTTCAATATATCCGGTAACTTTTAC-TGGTTTTGTCAATTTTGAGACC
* * * *
827696 AGTTTTATCATATTTTTGCCTGTTATATTGTTGTGGATCGATATATTTT-TTAAAAATATCGACA
65 AGTTTTATCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCAT-AAAATATCGACA
* * *
827760 CTTTATAGGCGCTATAACTTCTCTTTTAAATTCAGAAAATTTCGATACTTATATTAAATTATTGA
129 C-TT-T------T-TAA---C-GTTTTAAATTCAGAAAATGTCGATACTTATATTAAATTATCGA
* * * * *
827825 CAC--TCGACACATATCCGGTAGCGTTTTACCGGTTTTGTCA-TTTTGTGACC-GATTTTGTCAT
181 CACTTTC-A-ACATATCCGGTATCATTTT-CTGGTTTTGTCATTTTTGAGACCTG-TTTTATCAT
* * * * *
827886 ATTTGTT-CCTGTAATATTGCTATGGAACGATCCATTTT
242 ATTT-TTACCTGTTATATTGGTAAGGATCGATACATTTT
827924 TCATTTGTAT
Statistics
Matches: 835, Mismatches: 109, Indels: 101
0.80 0.10 0.10
Matches are distributed among these distances:
343 7 0.01
344 2 0.00
345 20 0.02
346 234 0.28
347 145 0.17
348 1 0.00
349 1 0.00
358 1 0.00
359 2 0.00
360 63 0.08
361 51 0.06
362 3 0.00
363 112 0.13
364 129 0.15
365 59 0.07
371 1 0.00
372 3 0.00
374 1 0.00
ACGTcount: A:0.28, C:0.15, G:0.13, T:0.44
Consensus pattern (348 bp):
TATTAAATTATCGACACTTTCAATATATCCGGTAACTTTTACTGGTTTTGTCAATTTTGAGACCA
GTTTTATCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAATATCGACACT
TTTTAACGTTTTAAATTCAGAAAATGTCGATACTTATATTAAATTATCGACACTTTCAACATATC
CGGTATCATTTTCTGGTTTTGTCATTTTTGAGACCTGTTTTATCATATTTTTACCTGTTATATTG
GTAAGGATCGATACATTTTAATAAAGTGTCGACACTTTTTAGGCGCTATAACTTCTTCTCTTTTA
AATTCAGAAAGTGTCGATACTAA
Found at i:827597 original size:181 final size:183
Alignment explanation
Indices: 827059--827923 Score: 1069
Period size: 182 Copynumber: 4.8 Consensus size: 183
827049 CACTTTTTAG
* * * * *
827059 TTTAATTTCAGAAAATGTCGATACTTATATTAAATTATCAACACTTTCAACATATCCGGTATCGT
1 TTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAACATATCCGGTAACTT
* *
827124 TTTACTGGTTTTGTCAATTTT-AGGACATGTTTTATCATATTTTTACCTGTTATATTGTTGTGGA
66 TTTACTGGTTTTGTCATTTTTGA-GACATGTTTTATCATATTTTTACCTGTTATATTGTTATGGA
* **
827188 TCGATA-TTTTTTTTAAAGTATCGACACTTTATAGGCGCTATAACTTCTTCTCT
130 TCGATACATTTTCATAAAGTATCGACACTTTATAGGCGCTATAACTTCTTCTCT
* * * * *
827241 TTTAAATTCAGAAAGTTTCGATACTTATATCAAATTATCGACACTTTCAATATATCCGGTAGCAT
1 TTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAACATATCCGGTAACTT
* **
827306 TTTACTGGTTTTGTCAATTTTGAGACATGTTTTATCATATTTTTATATGTTATATTGTTATGGAT
66 TTTACTGGTTTTGTCATTTTTGAGACATGTTTTATCATATTTTTACCTGTTATATTGTTATGGAT
* * * * * *
827371 CGATACATTTTCATAAAGTGTCAACACTTTTTAAGCGCAATAACTTTTTCTCT
131 CGATACATTTTCATAAAGTATCGACACTTTATAGGCGCTATAACTTCTTCTCT
* *
827424 TTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGACACTTTTAACATATCCGATAACTT
1 TTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAACATATCCGGTAACTT
* * * *
827489 TTTTC-GGTTTTGTCATTTTTGAGACCTG-TTTATCATATTTTTACCTGTTATATTGGTAAGGAT
66 TTTACTGGTTTTGTCATTTTTGAGACATGTTTTATCATATTTTTACCTGTTATATTGTTATGGAT
* *
827552 CGATACATTTTCATAAAGTGTCGACACTTTTTAGGCGCTATAACTTCTTCTCT
131 CGATACATTTTCATAAAGTATCGACACTTTATAGGCGCTATAACTTCTTCTCT
* *
827605 TTTAAATTCAGAAAGTGTCGATACTAATATTAAATTATCGACACTTTCAATATATCCGGTAACTT
1 TTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAACATATCCGGTAACTT
* * *
827670 TTT-CAT-GTTTTGTCATTTTTTAGACCA-GTTTTATCATATTTTTGCCTGTTATATTGTTGTGG
66 TTTAC-TGGTTTTGTCATTTTTGAGA-CATGTTTTATCATATTTTTACCTGTTATATTGTTATGG
* * *
827732 ATCGATATATTTT-TTAAAAATATCGACACTTTATAGGCGCTATAA---CTTCTCT
129 ATCGATACATTTTCAT-AAAGTATCGACACTTTATAGGCGCTATAACTTCTTCTCT
* * * *
827784 TTTAAATTCAGAAAATTTCGATACTTATATTAAATTATTGACAC--TCGACACATATCCGGTAGC
1 TTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGACACTTTC-A-ACATATCCGGTAAC
* * * * * * *
827847 GTTTTACCGGTTTTGTCA-TTTTGTGAC-CGATTTTGTCATATTTGTT-CCTGTAATATTGCTAT
64 TTTTTACTGGTTTTGTCATTTTTGAGACATG-TTTTATCATATTT-TTACCTGTTATATTGTTAT
* *
827909 GGAACGATCCATTTT
127 GGATCGATACATTTT
827924 TCATTTGTAT
Statistics
Matches: 599, Mismatches: 70, Indels: 31
0.86 0.10 0.04
Matches are distributed among these distances:
177 2 0.00
178 3 0.01
179 106 0.18
180 13 0.02
181 163 0.27
182 211 0.35
183 101 0.17
ACGTcount: A:0.28, C:0.15, G:0.13, T:0.44
Consensus pattern (183 bp):
TTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAACATATCCGGTAACTT
TTTACTGGTTTTGTCATTTTTGAGACATGTTTTATCATATTTTTACCTGTTATATTGTTATGGAT
CGATACATTTTCATAAAGTATCGACACTTTATAGGCGCTATAACTTCTTCTCT
Found at i:827880 original size:20 final size:21
Alignment explanation
Indices: 827852--827891 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
827842 GTAGCGTTTT
*
827852 ACCGGTTTTGTCAT-TTTGTG
1 ACCGATTTTGTCATATTTGTG
827872 ACCGATTTTGTCATATTTGT
1 ACCGATTTTGTCATATTTGT
827892 TCCTGTAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.15, C:0.15, G:0.20, T:0.50
Consensus pattern (21 bp):
ACCGATTTTGTCATATTTGTG
Found at i:831224 original size:37 final size:37
Alignment explanation
Indices: 831183--831256 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
831173 TATTTTTTGA
831183 GTTGTTCGAAAGTTCTTGAGATGAATATAAATAGTTT
1 GTTGTTCGAAAGTTCTTGAGATGAATATAAATAGTTT
*
831220 GTTGTTCGCAAGTTCTTGAGATGAATATAAATAGTTT
1 GTTGTTCGAAAGTTCTTGAGATGAATATAAATAGTTT
831257 ATCATGAATG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.31, C:0.07, G:0.22, T:0.41
Consensus pattern (37 bp):
GTTGTTCGAAAGTTCTTGAGATGAATATAAATAGTTT
Found at i:832720 original size:18 final size:19
Alignment explanation
Indices: 832697--832740 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
832687 CCAGTAATCC
*
832697 TATTCC-CTGGTAATCTTT
1 TATTCCACTGGTAATCTTA
832715 TATTCCCACTGGTAATCTTA
1 TATT-CCACTGGTAATCTTA
832735 TATTCC
1 TATTCC
832741 GTGAACCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 4 0.17
19 4 0.17
20 15 0.65
ACGTcount: A:0.20, C:0.25, G:0.09, T:0.45
Consensus pattern (19 bp):
TATTCCACTGGTAATCTTA
Found at i:832728 original size:20 final size:20
Alignment explanation
Indices: 832703--832740 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
832693 ATCCTATTCC
*
832703 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTATATTCCCA
832723 CTGGTAATCTTATATTCC
1 CTGGTAATCTTATATTCC
832741 GTGAACCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.24, G:0.11, T:0.45
Consensus pattern (20 bp):
CTGGTAATCTTATATTCCCA
Found at i:834219 original size:30 final size:30
Alignment explanation
Indices: 834183--834343 Score: 259
Period size: 30 Copynumber: 5.4 Consensus size: 30
834173 TTTCAAAAAA
**
834183 AAATTGAGAACCCAACTGAATTCCTGGTTG
1 AAATTGAGAACCCGGCTGAATTCCTGGTTG
* *
834213 AAATTGAGAACCCGGCTTAATTCCTTGTTG
1 AAATTGAGAACCCGGCTGAATTCCTGGTTG
*
834243 AAATTGAGAACCCGGCTGAATTTCTGGTTG
1 AAATTGAGAACCCGGCTGAATTCCTGGTTG
*
834273 AAATTGAGAACCCGGCTGAATTCCTGATTG
1 AAATTGAGAACCCGGCTGAATTCCTGGTTG
*
834303 AAATTGAGAACCCGGCTGAATTCCTGGTCG
1 AAATTGAGAACCCGGCTGAATTCCTGGTTG
834333 AAATTGAGAAC
1 AAATTGAGAAC
834344 TCGACCGACT
Statistics
Matches: 120, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 120 1.00
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.27
Consensus pattern (30 bp):
AAATTGAGAACCCGGCTGAATTCCTGGTTG
Found at i:834366 original size:27 final size:27
Alignment explanation
Indices: 834328--834435 Score: 126
Period size: 27 Copynumber: 3.9 Consensus size: 27
834318 CTGAATTCCT
*
834328 GGTCGAAATTGAGAACTCGACCGACTG
1 GGTCGAAATTGAGAACTCGACTGACTG
* *
834355 GGTCGAAATTGAGAATTCGACTGAAATATG
1 GGTCGAAATTGAGAACTCGACTG--A-CTG
* *
834385 GGTAGATATTGAGAACTCGACTGACTG
1 GGTCGAAATTGAGAACTCGACTGACTG
* *
834412 GGTTGAAATTGAGAATTCGACTGA
1 GGTCGAAATTGAGAACTCGACTGA
834436 ACTATTGGTA
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
27 44 0.65
28 1 0.01
29 1 0.01
30 22 0.32
ACGTcount: A:0.32, C:0.14, G:0.29, T:0.25
Consensus pattern (27 bp):
GGTCGAAATTGAGAACTCGACTGACTG
Found at i:834396 original size:30 final size:30
Alignment explanation
Indices: 834353--834466 Score: 126
Period size: 30 Copynumber: 3.9 Consensus size: 30
834343 CTCGACCGAC
*
834353 TGGGTCGAAATTGAGAATTCGACTGAAATA
1 TGGGTAGAAATTGAGAATTCGACTGAAATA
* * *
834383 TGGGTAGATATTGAGAACTCGACTG--A-C
1 TGGGTAGAAATTGAGAATTCGACTGAAATA
* *
834410 TGGGTTGAAATTGAGAATTCGACTGAACTA
1 TGGGTAGAAATTGAGAATTCGACTGAAATA
* * *
834440 TTGGTAGATATTGAGAATTCAACTGAA
1 TGGGTAGAAATTGAGAATTCGACTGAA
834467 TTCCAATCGA
Statistics
Matches: 68, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
27 22 0.32
28 1 0.01
30 45 0.66
ACGTcount: A:0.34, C:0.11, G:0.26, T:0.29
Consensus pattern (30 bp):
TGGGTAGAAATTGAGAATTCGACTGAAATA
Found at i:834465 original size:57 final size:57
Alignment explanation
Indices: 834335--834465 Score: 208
Period size: 57 Copynumber: 2.3 Consensus size: 57
834325 CCTGGTCGAA
*
834335 ATTGAGAACTCGACCGACTGGGTCGAAATTGAGAATTCGACTGAAATATGGGTAGAT
1 ATTGAGAACTCGACTGACTGGGTCGAAATTGAGAATTCGACTGAAATATGGGTAGAT
* * *
834392 ATTGAGAACTCGACTGACTGGGTTGAAATTGAGAATTCGACTGAACTATTGGTAGAT
1 ATTGAGAACTCGACTGACTGGGTCGAAATTGAGAATTCGACTGAAATATGGGTAGAT
* *
834449 ATTGAGAATTCAACTGA
1 ATTGAGAACTCGACTGA
834466 ATTCCAATCG
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
57 68 1.00
ACGTcount: A:0.34, C:0.13, G:0.26, T:0.27
Consensus pattern (57 bp):
ATTGAGAACTCGACTGACTGGGTCGAAATTGAGAATTCGACTGAAATATGGGTAGAT
Found at i:835279 original size:324 final size:325
Alignment explanation
Indices: 834689--835294 Score: 1106
Period size: 324 Copynumber: 1.9 Consensus size: 325
834679 GCTCGATCAT
*
834689 GTTCCTGGTCCGGATAGATTGAATTGGGCCGGTTCGTCTGATGGTAATTATTCCCCTAAATCCTT
1 GTTCCTGGTCCGGATAGATTGAATTGGGCCGGTTCGCCTGATGGTAATTATTCCCCTAAATCCTT
*
834754 TTGTTCCAAGCTGGGATTCTGCTGGCAAGTTAAAAGATTCTATTTGGAAAATGGTGTGGTCTAAA
66 TTGTTCCAAGCTGGGATTCTGCTGGCAAGTTAAAAGATTCTATTTGGAAAAGGGTGTGGTCTAAA
* * * * *
834819 TTAGCCCCTCCAAAAGTTGTTGGTTTCGTTTGGAAAGCTGTGCATCGGAGGGTGTCGGTTACCAC
131 TTAGCCACTCCAAAAGTTGCTGGTTTCGTTTGGAAAGCTGTGCATCGAAGAGTGCCGGTTACCAC
*
834884 TGAATTGGTTAAGCGAGGCGTTTGTTGCATTGAGAATGTTCTATGTATTTTCTGCAATAGTGCAC
196 TGAATTGGTTAAGCGAGGCGTTCGTTGCATTGAGAATGTTCTATGTATTTTCTGCAATAGTGCAC
834949 CTGAAACTATTGAACATGTTCTGTGGAATGAATTTACTTCTGTTCTTAACAGAGCTGTTAGTTCA
261 CTGAAACTATTGAACATGTTCTGTGGAATGAATTTACTTCTGTTCTTAACAGAGCTGTTAGTTCA
*
835014 GTTCCTGGTCTGGATAGATTGAATTGGGCCGGTTCGCCTGATGGTAATTATTCCCCTAAATCCTT
1 GTTCCTGGTCCGGATAGATTGAATTGGGCCGGTTCGCCTGATGGTAATTATTCCCCTAAATCCTT
**
835079 TTGTTCCAAGCT-GGATTCTGCTGGCAAGTTAAAAGATTCTATTTGGATTAGGGTGTGGTCTAAA
66 TTGTTCCAAGCTGGGATTCTGCTGGCAAGTTAAAAGATTCTATTTGGAAAAGGGTGTGGTCTAAA
835143 TTAGCCACTCCAAAAGTTGCTGGTTTCGTTTGGAAAGCTGTGCATCGAAGAGTGCCGGTTACCAC
131 TTAGCCACTCCAAAAGTTGCTGGTTTCGTTTGGAAAGCTGTGCATCGAAGAGTGCCGGTTACCAC
835208 TGAATTGGTTAAGCGAGGCGTTCGTTGCATTGAGAATGTTCTATGTATTTTCTGCAATAGTGCAC
196 TGAATTGGTTAAGCGAGGCGTTCGTTGCATTGAGAATGTTCTATGTATTTTCTGCAATAGTGCAC
835273 CTGAAACTATTGAACATGTTCT
261 CTGAAACTATTGAACATGTTCT
835295 TTGTCATTGT
Statistics
Matches: 270, Mismatches: 11, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
324 195 0.72
325 75 0.28
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.35
Consensus pattern (325 bp):
GTTCCTGGTCCGGATAGATTGAATTGGGCCGGTTCGCCTGATGGTAATTATTCCCCTAAATCCTT
TTGTTCCAAGCTGGGATTCTGCTGGCAAGTTAAAAGATTCTATTTGGAAAAGGGTGTGGTCTAAA
TTAGCCACTCCAAAAGTTGCTGGTTTCGTTTGGAAAGCTGTGCATCGAAGAGTGCCGGTTACCAC
TGAATTGGTTAAGCGAGGCGTTCGTTGCATTGAGAATGTTCTATGTATTTTCTGCAATAGTGCAC
CTGAAACTATTGAACATGTTCTGTGGAATGAATTTACTTCTGTTCTTAACAGAGCTGTTAGTTCA
Found at i:839087 original size:24 final size:24
Alignment explanation
Indices: 839052--839112 Score: 72
Period size: 23 Copynumber: 2.6 Consensus size: 24
839042 TTTAAGAGAA
* *
839052 TAAATATTAAAATGATAAATTTTT
1 TAAATATAAAAATGATAAATTTAT
*
839076 TAAATATAAAAA-AATAAATTTAT
1 TAAATATAAAAATGATAAATTTAT
839099 TAAAT-TAAGAAATG
1 TAAATATAA-AAATG
839113 GATAGATTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
22 3 0.10
23 17 0.55
24 11 0.35
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (24 bp):
TAAATATAAAAATGATAAATTTAT
Found at i:840163 original size:14 final size:14
Alignment explanation
Indices: 840146--840178 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
840136 ATAATAAATA
840146 ATTAT-AAATATATT
1 ATTATAAAATATA-T
840160 ATTATAAAATATAT
1 ATTATAAAATATAT
840174 ATTAT
1 ATTAT
840179 TTTAATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
ATTATAAAATATAT
Found at i:840177 original size:59 final size:61
Alignment explanation
Indices: 840087--840202 Score: 155
Period size: 59 Copynumber: 1.9 Consensus size: 61
840077 TTTTTTAATT
840087 ATTAAAAATATAAAATTATAAAAAAAATATTATTCTAATCA-TTTAAAATA-TAATAAATA
1 ATTAAAAATATAAAATTATAAAAAAAATATTATTCTAATCATTTTAAAATATTAATAAATA
* ** * * * *
840146 ATTATAAATATATTATTATAAAATATATATTATTTTAATTATTTTAAAATATTAATA
1 ATTAAAAATATAAAATTATAAAAAAAATATTATTCTAATCATTTTAAAATATTAATA
840203 TATTAGAATC
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
59 34 0.71
60 9 0.19
61 5 0.10
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (61 bp):
ATTAAAAATATAAAATTATAAAAAAAATATTATTCTAATCATTTTAAAATATTAATAAATA
Found at i:841207 original size:21 final size:23
Alignment explanation
Indices: 841171--841220 Score: 68
Period size: 21 Copynumber: 2.3 Consensus size: 23
841161 ATTAAATCTC
841171 TATTTTTTATTGAATAAAAATAA
1 TATTTTTTATTGAATAAAAATAA
* *
841194 TATTTTTT-TT-AATAAATATAT
1 TATTTTTTATTGAATAAAAATAA
841215 TATTTT
1 TATTTT
841221 GGGTTGGGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 15 0.60
22 2 0.08
23 8 0.32
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (23 bp):
TATTTTTTATTGAATAAAAATAA
Found at i:843266 original size:15 final size:15
Alignment explanation
Indices: 843246--843287 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
843236 GAAGAGTAAT
*
843246 ATGTATGCATGTATC
1 ATGTATGTATGTATC
843261 ATGTATGTATGTATC
1 ATGTATGTATGTATC
*
843276 ACGTATGTATGT
1 ATGTATGTATGT
843288 GCAATGCCCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.26, C:0.10, G:0.21, T:0.43
Consensus pattern (15 bp):
ATGTATGTATGTATC
Found at i:850715 original size:6 final size:6
Alignment explanation
Indices: 850704--850754 Score: 102
Period size: 6 Copynumber: 8.5 Consensus size: 6
850694 GACACGTATT
850704 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
850752 ACC
1 ACC
850755 CGAGCCGAGC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 45 1.00
ACGTcount: A:0.33, C:0.51, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:850764 original size:5 final size:5
Alignment explanation
Indices: 850754--850798 Score: 72
Period size: 5 Copynumber: 9.0 Consensus size: 5
850744 CGACCACGAC
* *
850754 CCGAG CCGAG CCGAG CCGAG CCGAG CCGAG CCGTG CCGAG ACGAG
1 CCGAG CCGAG CCGAG CCGAG CCGAG CCGAG CCGAG CCGAG CCGAG
850799 ACGGACAAAC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
5 37 1.00
ACGTcount: A:0.20, C:0.38, G:0.40, T:0.02
Consensus pattern (5 bp):
CCGAG
Found at i:855160 original size:12 final size:12
Alignment explanation
Indices: 855143--855171 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
855133 CTAAAAGATA
855143 AATTACTCATAG
1 AATTACTCATAG
855155 AATTACTCATAG
1 AATTACTCATAG
855167 AATTA
1 AATTA
855172 GTAAGCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.45, C:0.14, G:0.07, T:0.34
Consensus pattern (12 bp):
AATTACTCATAG
Found at i:859116 original size:44 final size:44
Alignment explanation
Indices: 859067--859154 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
859057 TCGTGTAGTG
859067 CATTCTATAGTCTTAAATTTCAAAAGGTTCAAAAACAATTAATA
1 CATTCTATAGTCTTAAATTTCAAAAGGTTCAAAAACAATTAATA
859111 CATTCTATAGTCTTAAATTTCAAAAGGTTCAAAAACAATTAATA
1 CATTCTATAGTCTTAAATTTCAAAAGGTTCAAAAACAATTAATA
859155 TGAAGCCATA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.45, C:0.14, G:0.07, T:0.34
Consensus pattern (44 bp):
CATTCTATAGTCTTAAATTTCAAAAGGTTCAAAAACAATTAATA
Found at i:863864 original size:72 final size:71
Alignment explanation
Indices: 863705--864379 Score: 662
Period size: 72 Copynumber: 9.5 Consensus size: 71
863695 AAAAAATGCA
* * * *
863705 AAATAGGT-CCTAAACTTGAATTTTTAGTTTTTTTTGATGAT-TTGAGTACTTGAACCTT-GCAA
1 AAATAGGTCCCTGAACATGAATTTTTAGGTTTTTTT-ATGATGTTGAGTCCTTGAA-CTTGGCAA
* *
863767 TACTTCTC
64 CACTTCCC
* * *
863775 AAATAGGCCCCTGAACTTGAATTTTTAGGTTTTTTCTATGATGTTGAGTCCTTGAGCTTGGCAAC
1 AAATAGGTCCCTGAACATGAATTTTTAGGTTTTTT-TATGATGTTGAGTCCTTGAACTTGGCAAC
863840 ACTTCCC
65 ACTTCCC
* ** * * * * * *
863847 AAGTAGGTTTCTAAACTTGAATATTTAAGTTTCTTTTATGATATTGAGTCCTTGAACTTGGCAAT
1 AAATAGGTCCCTGAACATGAATTTTTAGGTTT-TTTTATGATGTTGAGTCCTTGAACTTGGCAAC
*
863912 AGTTCCC
65 ACTTCCC
* * * * * **
863919 AAACAGGTCCTTAAACATGAA-TTTTAGG-TTTTTTATGATGATGAGTCCTTGAACTTGGAAAGT
1 AAATAGGTCCCTGAACATGAATTTTTAGGTTTTTTTATGATGTTGAGTCCTTGAACTTGGCAACA
*
863982 CTTCTC
66 CTTCCC
* * * * * *
863988 AAATAGGTACATGAACATAAATTTTTAGGTTTTTTTTATGATGTTAAGTCCTTGAACTTGGAAAT
1 AAATAGGTCCCTGAACATGAATTTTTAGG-TTTTTTTATGATGTTGAGTCCTTGAACTTGGCAAC
864053 ACTTCCC
65 ACTTCCC
* * * *
864060 AAATAGGTACATGAACATGAATTTTTAGGTTTTTTTTATGATGTTGAGTCCTTTAACTTGGAAAC
1 AAATAGGTCCCTGAACATGAATTTTTAGG-TTTTTTTATGATGTTGAGTCCTTGAACTTGGCAAC
864125 ACTTCCC
65 ACTTCCC
* * * * *
864132 AAATAGGTCCCTGAACTTGAATTTTTA-GTATTTTTTATAACGTTAAGTCCTTGAACTTGGAAAC
1 AAATAGGTCCCTGAACATGAATTTTTAGGT-TTTTTTATGATGTTGAGTCCTTGAACTTGGCAAC
*
864196 TCTTCCC
65 ACTTCCC
** * ** * * *
864203 AAATAGGTCTATGAACATGAACTTTTAGGGGTTTTAATGATGTAGAGTCCTTGAACTTAGCAACA
1 AAATAGGTCCCTGAACATGAATTTTTAGGTTTTTTTATGATGTTGAGTCCTTGAACTTGGCAACA
864268 CATT-CC
66 C-TTCCC
* ** * ** * *
864274 AAATAGGTCCCTGGACATGAAACTTCAGGGGTTTTAATGACGTTGAGTCCTTGAACTTGGCAACA
1 AAATAGGTCCCTGAACATGAATTTTTAGGTTTTTTTATGATGTTGAGTCCTTGAACTTGGCAACA
*
864339 CTTTCC
66 CTTCCC
* * *
864345 AAATAGGTCTCTAAACTTGAATTTTTAGGTTTTTT
1 AAATAGGTCCCTGAACATGAATTTTTAGGTTTTTT
864380 GAATTACTGA
Statistics
Matches: 506, Mismatches: 87, Indels: 23
0.82 0.14 0.04
Matches are distributed among these distances:
69 48 0.09
70 19 0.04
71 211 0.42
72 225 0.44
73 3 0.01
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.39
Consensus pattern (71 bp):
AAATAGGTCCCTGAACATGAATTTTTAGGTTTTTTTATGATGTTGAGTCCTTGAACTTGGCAACA
CTTCCC
Found at i:864099 original size:213 final size:211
Alignment explanation
Indices: 863705--864379 Score: 704
Period size: 213 Copynumber: 3.2 Consensus size: 211
863695 AAAAAATGCA
* * *
863705 AAATAGGTCC-TAAACTTGAATTTTTA-GTTTTTTTTGATGATTTGAGTACTTGAACCTT-GCAA
1 AAATAGGTCCTTAAACTTGAATTTTTAGGTTTTTTATGATGA--TGAGTCCTTGAA-CTTGGAAA
* * * * * *
863767 TACTTCTCAAATAGGCCCCTGAACTTGAATTTTTAGGTTTTTTCTATGATGTTGAGTCCTTGAGC
63 T-CTTCTCAAATAGG-TCATGAACATGAATTTTTAGGTTTTTTTTATGATGTTAAGTCCTTGAAC
* * * * * * *
863832 TTGGCAACACTTCCCAAGTAGGTTTCTAAACTTGAATATTTAAGTTTCTTTTATGATATTGAGTC
126 TTGGCAACACTTCCCAAATAGG-TACTGAACATGAATATTTAGGTTTTTTTTATGATGTTGAGTC
* *
863897 CTTGAACTTGGCAATAGTTCCC
190 CTTGAACTTGGCAACACTTCCC
* *
863919 AAACAGGTCCTTAAACATGAA-TTTTAGGTTTTTTATGATGATGAGTCCTTGAACTTGGAAAGTC
1 AAATAGGTCCTTAAACTTGAATTTTTAGGTTTTTTATGATGATGAGTCCTTGAACTTGGAAA-TC
*
863983 TTCTCAAATAGGTACATGAACATAAATTTTTAGGTTTTTTTTATGATGTTAAGTCCTTGAACTTG
65 TTCTCAAATAGGT-CATGAACATGAATTTTTAGGTTTTTTTTATGATGTTAAGTCCTTGAACTTG
* * *
864048 GAAATACTTCCCAAATAGGTACATGAACATGAATTTTTAGGTTTTTTTTATGATGTTGAGTCCTT
129 GCAACACTTCCCAAATAGGTAC-TGAACATGAATATTTAGGTTTTTTTTATGATGTTGAGTCCTT
* *
864113 TAACTTGGAAACACTTCCC
193 GAACTTGGCAACACTTCCC
* * * * * * *
864132 AAATAGGTCCCTGAACTTGAATTTTTAGTATTTTTTATAACGTTAAGTCCTTGAACTTGGAAACT
1 AAATAGGTCCTTAAACTTGAATTTTTAG-GTTTTTTATGATGATGAGTCCTTGAACTTGGAAA-T
* * ** *
864197 CTTCCCAAATAGGTCTATGAACATGAACTTTTAGG-GGTTTTAATGATG-TAGAGTCCTTGAACT
64 CTTCTCAAATAGGTC-ATGAACATGAATTTTTAGGTTTTTTTTATGATGTTA-AGTCCTTGAACT
* * * * ** * *
864260 TAGCAACACATT-CCAAATAGGTCCCTGGACATGAA-ACTTCAGG-GGTTTTAATGACGTTGAGT
127 TGGCAACAC-TTCCCAAATAGGT-ACTGAACATGAATA-TTTAGGTTTTTTTTATGATGTTGAGT
*
864322 CCTTGAACTTGGCAACACTTTCC
189 CCTTGAACTTGGCAACACTTCCC
864345 AAATAGGT-CTCTAAACTTGAATTTTTAGGTTTTTT
1 AAATAGGTCCT-TAAACTTGAATTTTTAGGTTTTTT
864380 GAATTACTGA
Statistics
Matches: 388, Mismatches: 59, Indels: 30
0.81 0.12 0.06
Matches are distributed among these distances:
212 12 0.03
213 217 0.56
214 74 0.19
215 85 0.22
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.39
Consensus pattern (211 bp):
AAATAGGTCCTTAAACTTGAATTTTTAGGTTTTTTATGATGATGAGTCCTTGAACTTGGAAATCT
TCTCAAATAGGTCATGAACATGAATTTTTAGGTTTTTTTTATGATGTTAAGTCCTTGAACTTGGC
AACACTTCCCAAATAGGTACTGAACATGAATATTTAGGTTTTTTTTATGATGTTGAGTCCTTGAA
CTTGGCAACACTTCCC
Found at i:864327 original size:142 final size:142
Alignment explanation
Indices: 863792--864379 Score: 541
Period size: 142 Copynumber: 4.1 Consensus size: 142
863782 CCCCTGAACT
* * * * * **
863792 TGAATTTTTAGGTTTTTTCTATGATGTTGAGTCCTTGAGCTTGGCAACACTTCCCAAGTAGGTTT
1 TGAATTTTTAGGGTTTTT-TATGATGTAGAGTCCTTGAACTTGGAAACACTT-CCAAATAGGTCC
* * * * ** * * *
863857 CTAAACTTG-AATATTTAAGTTTCTTTTATGATATTGAGTCCTTGAACTTGGCAATAGTTCCCAA
64 CTGAACATGAAAT-TTTAGGATT-TTTTATGACGTTAAGTCCTTGAACTTGGAAATACTTCCCAA
* *
863921 ACAGGTCCT-TAAACA
127 ATAGGTACTATAAACA
** *
863936 TGAA-TTTTA-GGTTTTTTATGATG-ATGAGTCCTTGAACTTGGAAAGTCTTCTCAAATAGGTAC
1 TGAATTTTTAGGGTTTTTTATGATGTA-GAGTCCTTGAACTTGGAAACACTTC-CAAATAGGTCC
* * *
863998 ATGAACAT-AAATTTTTAGGTTTTTTTTATGATGTTAAGTCCTTGAACTTGGAAATACTTCCCAA
64 CTGAACATGAAA-TTTTAGG-ATTTTTTATGACGTTAAGTCCTTGAACTTGGAAATACTTCCCAA
*
864062 ATAGGTAC-ATGAACA
127 ATAGGTACTATAAACA
* * *
864077 TGAATTTTTAGGTTTTTTTTATGATGTTGAGTCCTTTAACTTGGAAACACTTCCCAAATAGGTCC
1 TGAATTTTTAGG-GTTTTTTATGATGTAGAGTCCTTGAACTTGGAAACACTT-CCAAATAGGTCC
* * * *
864142 CTGAACTTGAATTTTTAGTATTTTTTATAACGTTAAGTCCTTGAACTTGGAAACT-CTTCCCAAA
64 CTGAACATGAAATTTTAGGATTTTTTATGACGTTAAGTCCTTGAACTTGGAAA-TACTTCCCAAA
*
864206 TAGGT-CTATGAACA
128 TAGGTACTATAAACA
* * * * *
864220 TGAACTTTTAGGGGTTTTAATGATGTAGAGTCCTTGAACTTAGCAACACATTCCAAATAGGTCCC
1 TGAATTTTTAGGGTTTTTTATGATGTAGAGTCCTTGAACTTGGAAACAC-TTCCAAATAGGTCCC
* * * ** * * * * *
864285 TGGACATGAAACTTCAGGGGTTTTAATGACGTTGAGTCCTTGAACTTGGCAACACTTTCCAAATA
65 TGAACATGAAATTTTAGGATTTTTTATGACGTTAAGTCCTTGAACTTGGAAATACTTCCCAAATA
* *
864350 GGT-CTCTAAACT
130 GGTACTATAAACA
864362 TGAATTTTTA-GGTTTTTT
1 TGAATTTTTAGGGTTTTTT
864380 GAATTACTGA
Statistics
Matches: 367, Mismatches: 61, Indels: 35
0.79 0.13 0.08
Matches are distributed among these distances:
140 1 0.00
141 105 0.29
142 127 0.35
143 71 0.19
144 60 0.16
145 3 0.01
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.39
Consensus pattern (142 bp):
TGAATTTTTAGGGTTTTTTATGATGTAGAGTCCTTGAACTTGGAAACACTTCCAAATAGGTCCCT
GAACATGAAATTTTAGGATTTTTTATGACGTTAAGTCCTTGAACTTGGAAATACTTCCCAAATAG
GTACTATAAACA
Found at i:865645 original size:185 final size:184
Alignment explanation
Indices: 865329--865718 Score: 597
Period size: 185 Copynumber: 2.1 Consensus size: 184
865319 TTTTCTAATT
* * * *
865329 TATATAAAAATTAAATGTTTTTTAATTCAAAAAAAAGTTTATAATTAATTTAAATAATATATAAT
1 TATATAAATATTTAATATTTTTTAATTCAAAAAAAAGTTTACAATTAATTTAAATAATATATAAT
* * *
865394 TATAAAATAAAAATTTTAGATAAAGTTTTTAATTAAGTAATATTGATTTAGGTTTACAATTTATT
66 TATAAAATAAAAATTTTAGATAAAGTTTTTAACTAAGTAATATTGATTTAGGTTTAAAAGTTATT
*
865459 GGATCTTAAATTATTAATTGGGTTTTAAATAGTTTGGGCTT-AGCCCATATGTTA
131 GGATCTTAAATTATTAATTGGGTTTTAAATAGTTT-GGATTGAGCCCATATGTTA
865513 TATATAATATATTTAATATTTTTTAATT-AAAAAAACAGTTTACAATTAATTTAAATAATATATA
1 TATATAA-ATATTTAATATTTTTTAATTCAAAAAAA-AGTTTACAATTAATTTAAATAATATATA
* * * *
865577 ATTATAAAATTAAAATTTTATAT-AATTTTTTAAACTAATTAATATTGATTTAGGTTTAAAAGTT
64 ATTATAAAATAAAAATTTTAGATAAAGTTTTT-AACTAAGTAATATTGATTTAGGTTTAAAAGTT
*
865641 ATTGGATCTTAAATTATTAATTGGGTTTTAAATGGTTTGGATTGAGCCCATATGTTA
128 ATTGGATCTTAAATTATTAATTGGGTTTTAAATAGTTTGGATTGAGCCCATATGTTA
865698 TATATAAAATATTTAATATTT
1 TATAT-AAATATTTAATATTT
865719 AAAATTTAAT
Statistics
Matches: 188, Mismatches: 13, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
184 25 0.13
185 161 0.86
186 2 0.01
ACGTcount: A:0.42, C:0.04, G:0.09, T:0.45
Consensus pattern (184 bp):
TATATAAATATTTAATATTTTTTAATTCAAAAAAAAGTTTACAATTAATTTAAATAATATATAAT
TATAAAATAAAAATTTTAGATAAAGTTTTTAACTAAGTAATATTGATTTAGGTTTAAAAGTTATT
GGATCTTAAATTATTAATTGGGTTTTAAATAGTTTGGATTGAGCCCATATGTTA
Found at i:867433 original size:41 final size:41
Alignment explanation
Indices: 867184--867555 Score: 181
Period size: 41 Copynumber: 9.2 Consensus size: 41
867174 CATTTTTAGC
* * * * * * *
867184 GGCGTTTTATGAACAAACGCCGATAAATAAT-GTATTTTAGT
1 GGCGTTTT-TAAAAAAACGCCGCTAAAGACTCGTACTTTAAT
* * * * *
867225 GGCGTTTTTATAAAAATGTCGCTAAATACT-TTACTTTAAT
1 GGCGTTTTTAAAAAAACGCCGCTAAAGACTCGTACTTTAAT
* * * *
867265 GACGTTTTTATACAAAA-GCCGCTAACAG--TCATACTTTAGT
1 GGCGTTTTTA-AAAAAACGCCGCTAA-AGACTCGTACTTTAAT
* * *** *
867305 GGCG-TTTTAAACACAAACACCACTAATTTCACGTACTTT-A-
1 GGCGTTTTTAAA-A-AAACGCCGCTAAAGACTCGTACTTTAAT
* * * ** * **
867345 GGGGTTTTTATATAAACGCCAATAAATA-TTATACTTTAAT
1 GGCGTTTTTAAAAAAACGCCGCTAAAGACTCGTACTTTAAT
* * *
867385 GGCGTTTTTAGAAAAACGCCTCTAAAAACTCGTACTTTAAT
1 GGCGTTTTTAAAAAAACGCCGCTAAAGACTCGTACTTTAAT
* * * * * *
867426 GGTG-TTTTAACACAAACGCCGCTAAATATTTGTACTTTAGT
1 GGCGTTTTTAA-AAAAACGCCGCTAAAGACTCGTACTTTAAT
* * *
867467 GGCGTTTATAAAAAAACGCTGCTAAAGACTCGTACTTTAGT
1 GGCGTTTTTAAAAAAACGCCGCTAAAGACTCGTACTTTAAT
* * * ** *
867508 GGCATTTTTATACAAACGCCGCTAAAGACTCACACTTTATT
1 GGCGTTTTTAAAAAAACGCCGCTAAAGACTCGTACTTTAAT
867549 GG-GTTTT
1 GGCGTTTT
867556 CTTCTTCTTG
Statistics
Matches: 249, Mismatches: 68, Indels: 29
0.72 0.20 0.08
Matches are distributed among these distances:
38 7 0.03
39 19 0.08
40 86 0.35
41 125 0.50
42 12 0.05
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (41 bp):
GGCGTTTTTAAAAAAACGCCGCTAAAGACTCGTACTTTAAT
Found at i:867461 original size:120 final size:122
Alignment explanation
Indices: 867196--867555 Score: 297
Period size: 120 Copynumber: 3.0 Consensus size: 122
867186 CGTTTTATGA
* * * * * **
867196 ACAAACGCCGATAAATA-ATGTATTTTAGTGGCGTTTTTATAAAAATGTCGCTAAATACTTTACT
1 ACAAACGCCGCTAAATATTTGTACTTTAGTGGCGTTTTTATAAAAACGCCAATAAATACTTTACT
* * * *
867260 TTAATGACGTTTTTATACAAAAGCCGCTAACAGTCATACTTTAGTGGCGTTTTAAAC
66 TTAATGACGTTTTTAGACAAAAGCCGCTAAAACTCATACTTTAATGGCGTTTTAAAC
* * * *
867317 ACAAACACCACT-AAT-TTCACGTACTTTAG-GG-GTTTTTATATAAACGCCAATAAATA-TTAT
1 ACAAACGCCGCTAAATATT--TGTACTTTAGTGGCGTTTTTATAAAAACGCCAATAAATACTT-T
* * * *
867377 ACTTTAATGGCGTTTTTAGA-AAAACGCCTCTAAAAACTCGTACTTTAATGGTGTTTT-AAC
63 ACTTTAATGACGTTTTTAGACAAAA-GCCGCT-AAAACTCATACTTTAATGGCGTTTTAAAC
* * *** * *
867437 ACAAACGCCGCTAAATATTTGTACTTTAGTGGCGTTTATAAAAAAACGCTGCTAAAGACTCGTAC
1 ACAAACGCCGCTAAATATTTGTACTTTAGTGGCGTTTTTATAAAAACGCCAATAAATACT-TTAC
* * * * * * *
867502 TTTAGTGGCATTTTTATACAAACGCCGCTAAAGACTCACACTTTATTGG-GTTTT
65 TTTAATGACGTTTTTAGACAAAAGCCGCTAAA-ACTCATACTTTAATGGCGTTTT
867556 CTTCTTCTTG
Statistics
Matches: 187, Mismatches: 38, Indels: 27
0.74 0.15 0.11
Matches are distributed among these distances:
119 6 0.03
120 69 0.37
121 36 0.19
122 36 0.19
123 37 0.20
124 3 0.02
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.34
Consensus pattern (122 bp):
ACAAACGCCGCTAAATATTTGTACTTTAGTGGCGTTTTTATAAAAACGCCAATAAATACTTTACT
TTAATGACGTTTTTAGACAAAAGCCGCTAAAACTCATACTTTAATGGCGTTTTAAAC
Found at i:867545 original size:82 final size:81
Alignment explanation
Indices: 867219--867555 Score: 267
Period size: 82 Copynumber: 4.2 Consensus size: 81
867209 AATAATGTAT
* * * * *
867219 TTTAGTGGCGTTTTTATAAAAATG-TCGCTAAATACT-TTACTTTAATGACGTTTTTATACAAAA
1 TTTAGTGGCGTTTTTAAAAAAACGCT-GCTAAATACTCGTACTTTAATGGCGTTTTTATACAAAC
867282 GCCGCTAACAG-TCATAC
65 GCCGCTAA-AGATCATAC
* ** * * * * *
867299 TTTAGTGGCG-TTTTAAACACAAACACCACTAATTTCACGTACTTT-A-GGGGTTTTTATATAAA
1 TTTAGTGGCGTTTTTAAA-A-AAACGCTGCTAAATACTCGTACTTTAATGGCGTTTTTATACAAA
** * *
867361 CGCCAATAAATATTATAC
64 CGCCGCTAAAGATCATAC
* * * * * *
867379 TTTAATGGCGTTTTTAGAAAAACGCCT-CTAAAAACTCGTACTTTAATGGTGTTTTAACACAAAC
1 TTTAGTGGCGTTTTTAAAAAAACG-CTGCTAAATACTCGTACTTTAATGGCGTTTTTATACAAAC
* **
867443 GCCGCTAAATATTTGTAC
65 GCCGCTAAAGA-TCATAC
* * * *
867461 TTTAGTGGCGTTTATAAAAAAACGCTGCTAAAGACTCGTACTTTAGTGGCATTTTTATACAAACG
1 TTTAGTGGCGTTTTTAAAAAAACGCTGCTAAATACTCGTACTTTAATGGCGTTTTTATACAAACG
*
867526 CCGCTAAAGACTCACAC
66 CCGCTAAAGA-TCATAC
*
867543 TTTATTGG-GTTTT
1 TTTAGTGGCGTTTT
867556 CTTCTTCTTG
Statistics
Matches: 198, Mismatches: 48, Indels: 21
0.74 0.18 0.08
Matches are distributed among these distances:
79 24 0.12
80 47 0.24
81 44 0.22
82 83 0.42
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (81 bp):
TTTAGTGGCGTTTTTAAAAAAACGCTGCTAAATACTCGTACTTTAATGGCGTTTTTATACAAACG
CCGCTAAAGATCATAC
Found at i:870388 original size:20 final size:20
Alignment explanation
Indices: 870363--870405 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
870353 TCTAAGAGCC
*
870363 CATTTAGGATCATATAGATG
1 CATTTAGGAGCATATAGATG
*
870383 CATTTAGGAGCATATAGTTG
1 CATTTAGGAGCATATAGATG
870403 CAT
1 CAT
870406 GTGGTAGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.35
Consensus pattern (20 bp):
CATTTAGGAGCATATAGATG
Found at i:872779 original size:30 final size:31
Alignment explanation
Indices: 872745--872802 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
872735 TAAATTTTGA
* *
872745 GGACC-ATTCTATAATTTTTAAAAAGTTAGG
1 GGACCAATTCAATAATTTTGAAAAAGTTAGG
*
872775 GGACCAATTCAATAATTTTGGAAAAGTT
1 GGACCAATTCAATAATTTTGAAAAAGTT
872803 GTGAATGATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 5 0.21
31 19 0.79
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.34
Consensus pattern (31 bp):
GGACCAATTCAATAATTTTGAAAAAGTTAGG
Found at i:874639 original size:23 final size:23
Alignment explanation
Indices: 874604--874671 Score: 82
Period size: 23 Copynumber: 3.0 Consensus size: 23
874594 CATCTTATAT
*
874604 GGCACTACGGTGCATTTCTACGC
1 GGCACTTCGGTGCATTTCTACGC
* * **
874627 GGCACTTCAGTGCAATTCTACAT
1 GGCACTTCGGTGCATTTCTACGC
*
874650 GGCACTTCGGTGCATTTATACG
1 GGCACTTCGGTGCATTTCTACG
874672 AGCTGTGGTG
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.21, C:0.26, G:0.24, T:0.29
Consensus pattern (23 bp):
GGCACTTCGGTGCATTTCTACGC
Found at i:875536 original size:20 final size:22
Alignment explanation
Indices: 875508--875548 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
875498 ATACTACAAT
875508 CATTCCA-TTT-CCACAACATC
1 CATTCCATTTTGCCACAACATC
*
875528 CATTTCATTTTGCCACAACAT
1 CATTCCATTTTGCCACAACAT
875549 TCTCATTTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 3 0.17
22 9 0.50
ACGTcount: A:0.29, C:0.34, G:0.02, T:0.34
Consensus pattern (22 bp):
CATTCCATTTTGCCACAACATC
Found at i:876531 original size:43 final size:43
Alignment explanation
Indices: 876457--876570 Score: 165
Period size: 43 Copynumber: 2.6 Consensus size: 43
876447 CGATATGACA
* * * *
876457 TTTTATGGCGTTTGTTTCCAAAAATGACGCTATAGATCTCGACC
1 TTTTACGGCGTTTG-TTCCAAAAACGCCGCTATAAATCTCGACC
*
876501 TTTTACGGCATTTGTTCCAAAAACGCCGCTATAAATCTCGACC
1 TTTTACGGCGTTTGTTCCAAAAACGCCGCTATAAATCTCGACC
*
876544 TTTTGCGGCGTTTGTTCCAAAAACGCC
1 TTTTACGGCGTTTGTTCCAAAAACGCC
876571 ATTATATATC
Statistics
Matches: 63, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
43 51 0.81
44 12 0.19
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.33
Consensus pattern (43 bp):
TTTTACGGCGTTTGTTCCAAAAACGCCGCTATAAATCTCGACC
Found at i:877768 original size:48 final size:48
Alignment explanation
Indices: 877716--877910 Score: 225
Period size: 48 Copynumber: 4.1 Consensus size: 48
877706 TTCCGTCATC
* * *
877716 GAAACCCCAAACTTATCTTCTTCATGGTTTCGCAGTAATTCCATCGTT
1 GAAACCCTAAGCTTATCTTCTTCATGGTTTCGCAGTAATTCCATAGTT
* * *
877764 GAAACCCTAAGTTTATCTTCATCGA-GGTTTCGC-TTCAATTCCATAGTT
1 GAAACCCTAAGCTTATCTTCTTC-ATGGTTTCGCAGT-AATTCCATAGTT
* * ** * *
877812 GAAACCCTAAGGTTATCTTTTTCATGGTTTATCAATAATTCCATCGTT
1 GAAACCCTAAGCTTATCTTCTTCATGGTTTCGCAGTAATTCCATAGTT
*
877860 GAAACCCTAAGGC-TATCTTCTTCATGGTTTCGCAGCAATTCCATAGTT
1 GAAACCCTAA-GCTTATCTTCTTCATGGTTTCGCAGTAATTCCATAGTT
877908 GAA
1 GAA
877911 TACGCCAAAA
Statistics
Matches: 122, Mismatches: 20, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
47 2 0.02
48 117 0.96
49 3 0.02
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.36
Consensus pattern (48 bp):
GAAACCCTAAGCTTATCTTCTTCATGGTTTCGCAGTAATTCCATAGTT
Found at i:877836 original size:96 final size:96
Alignment explanation
Indices: 877728--877910 Score: 269
Period size: 96 Copynumber: 1.9 Consensus size: 96
877718 AACCCCAAAC
* * **
877728 TTATCTTCTTCATGGTTTCGCAGTAATTCCATCGTTGAAACCCTAAGTTTATCTTCATCGA-GGT
1 TTATCTTCTTCATGGTTTAGCAATAATTCCATCGTTGAAACCCTAAGGCTATCTTCATC-ATGGT
**
877792 TTCGCTTCAATTCCATAGTTGAAACCCTAAGG
65 TTCGCAGCAATTCCATAGTTGAAACCCTAAGG
* * *
877824 TTATCTTTTTCATGGTTTATCAATAATTCCATCGTTGAAACCCTAAGGCTATCTTCTTCATGGTT
1 TTATCTTCTTCATGGTTTAGCAATAATTCCATCGTTGAAACCCTAAGGCTATCTTCATCATGGTT
877889 TCGCAGCAATTCCATAGTTGAA
66 TCGCAGCAATTCCATAGTTGAA
877911 TACGCCAAAA
Statistics
Matches: 77, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
95 1 0.01
96 76 0.99
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.39
Consensus pattern (96 bp):
TTATCTTCTTCATGGTTTAGCAATAATTCCATCGTTGAAACCCTAAGGCTATCTTCATCATGGTT
TCGCAGCAATTCCATAGTTGAAACCCTAAGG
Found at i:879539 original size:2 final size:2
Alignment explanation
Indices: 879532--879568 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
879522 TTAAAACTTC
879532 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
879569 TCATCCGGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Done.