Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008593.1 Hibiscus syriacus cultivar Beakdansim tig00111542_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: 1058705
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
File 3 of 5
Found at i:544620 original size:22 final size:22
Alignment explanation
Indices: 544595--544637 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
544585 ACTTTATTAG
544595 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
544617 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
544638 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:544674 original size:22 final size:22
Alignment explanation
Indices: 544649--544690 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
544639 AATTTATTAG
544649 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
*
544671 TATGGATTTATTTATTTTAA
1 TATGGATTGATTTATTTTAA
544691 TTACTTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.55
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:544731 original size:22 final size:21
Alignment explanation
Indices: 544703--544747 Score: 81
Period size: 22 Copynumber: 2.1 Consensus size: 21
544693 ACTTTATTAG
544703 TATGGATTGATTTATTTTCAAA
1 TATGGATTGATTTATTTT-AAA
544725 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
544746 TA
1 TA
544748 ATTTATTAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 5 0.22
22 18 0.78
ACGTcount: A:0.33, C:0.02, G:0.13, T:0.51
Consensus pattern (21 bp):
TATGGATTGATTTATTTTAAA
Found at i:544782 original size:22 final size:22
Alignment explanation
Indices: 544757--544799 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
544747 AATTTATTAG
544757 TATGAATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
*
544779 TATGGATTGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
544800 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:544836 original size:22 final size:22
Alignment explanation
Indices: 544811--544853 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
544801 AATTTATTAG
*
544811 TATGGATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
544833 TATGAATTGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
544854 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:544913 original size:31 final size:31
Alignment explanation
Indices: 544878--544936 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
544868 AGTTGTATGG
* *
544878 ATTATTTAAATTTCAGTATTGTAAAACTAAA
1 ATTATTTAAATCTCAGTATTGCAAAACTAAA
544909 ATTATTTAAATCTCAGTATTGCAAAACT
1 ATTATTTAAATCTCAGTATTGCAAAACT
544937 CTTTTAAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.41
Consensus pattern (31 bp):
ATTATTTAAATCTCAGTATTGCAAAACTAAA
Found at i:545702 original size:3 final size:3
Alignment explanation
Indices: 545694--545816 Score: 246
Period size: 3 Copynumber: 41.0 Consensus size: 3
545684 TTTATTTTAA
545694 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
545742 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
545790 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
545817 GCGGTTATCC
Statistics
Matches: 120, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 120 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:547246 original size:35 final size:35
Alignment explanation
Indices: 547200--547275 Score: 116
Period size: 35 Copynumber: 2.2 Consensus size: 35
547190 AAAACAGTCC
* *
547200 TCAATTTCATTCTAAACCCCAATTTCCAAAGTAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
**
547235 TCAATTTCATTCTAAACCTTAAATTCCAAAATAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
547270 TCAATT
1 TCAATT
547276 CAATTCAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.39, C:0.22, G:0.01, T:0.37
Consensus pattern (35 bp):
TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
Found at i:547823 original size:128 final size:126
Alignment explanation
Indices: 547660--547917 Score: 417
Period size: 128 Copynumber: 2.0 Consensus size: 126
547650 TTCAGTCTTT
* **
547660 ATTATTTATATAATCAATTTGGTCCTAAATTAAATAGAATTTAATAAATTAATCATTTAATTAGG
1 ATTATTTATATAATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGG
* *
547725 ATCTGACATGTGTTAGCACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTA
66 ATCTGACATGTGTTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTA
*
547786 ATTATTTATATGCTATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCA
1 ATTATTTATAT--AATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCA
* * *
547851 GGATCTGACATGTGTTAACACATGATCATGATATATGTTATTGGTGACACATGTCACCACCTA
64 GGATCTGACATGTGTTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTA
547914 ATTA
1 ATTA
547918 GAAGAAAATT
Statistics
Matches: 121, Mismatches: 9, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
126 11 0.09
128 110 0.91
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.36
Consensus pattern (126 bp):
ATTATTTATATAATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGG
ATCTGACATGTGTTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTA
Found at i:548400 original size:15 final size:16
Alignment explanation
Indices: 548376--548412 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
548366 TTTAATTTCT
548376 TATT-AAAAATA-AAA
1 TATTCAAAAATATAAA
548390 TATTCAAAAATATAAA
1 TATTCAAAAATATAAA
548406 TGATTCA
1 T-ATTCA
548413 TACATTAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 4 0.20
15 7 0.35
16 4 0.20
17 5 0.25
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.32
Consensus pattern (16 bp):
TATTCAAAAATATAAA
Found at i:548926 original size:2 final size:2
Alignment explanation
Indices: 548919--548949 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
548909 ATAAAAATCC
548919 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
548950 AATCAACTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:551167 original size:18 final size:18
Alignment explanation
Indices: 551130--551165 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
551120 AAATATTATA
*
551130 ATTTAAAATTTTAATTTT
1 ATTTAAAAATTTAATTTT
551148 ATTTAATAAATTTAATTT
1 ATTTAA-AAATTTAATTT
551166 ATCCTCTCGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
ATTTAAAAATTTAATTTT
Found at i:553004 original size:60 final size:59
Alignment explanation
Indices: 552912--553052 Score: 147
Period size: 60 Copynumber: 2.3 Consensus size: 59
552902 ATGGGTGAAG
* * * * * *
552912 TACACAAATGGTCTCCGACTATAGGGTATTGCTTTATTAAGTCTATCGATTATTAAAAGT
1 TACA-AAATGGTCTCCGACTATAGAGCATTGCTTTATTAAGTCCATCAACTATCAAAAGT
* * * * *
552972 TACAAAATGGTCGTTCGACTATAGAGCGTTGCTTTGTTGAGTCCCTCAACTATCAAAAGT
1 TACAAAATGGTC-TCCGACTATAGAGCATTGCTTTATTAAGTCCATCAACTATCAAAAGT
*
553032 TACAAAATGATCATCCGACTA
1 TACAAAATGGTC-TCCGACTA
553053 ATCAATATGT
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
59 8 0.12
60 58 0.88
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Consensus pattern (59 bp):
TACAAAATGGTCTCCGACTATAGAGCATTGCTTTATTAAGTCCATCAACTATCAAAAGT
Found at i:553325 original size:60 final size:60
Alignment explanation
Indices: 553251--553377 Score: 166
Period size: 60 Copynumber: 2.1 Consensus size: 60
553241 AACATATTGA
* * ** *
553251 ATAGTCGAATGATCATTTTGTAACTTTTAATAGTCGAGGGACTCAACAAAACAATACTCT
1 ATAGTCGAATGATCATTTTGTAACTATTAATAGCCGAAAGACTCAACAAAACAATACCCT
* * *
553311 ATAGTC-AGATGATCATTTTGTAACTATTAATAGCCGAAAGACTTAATAAAGCAATACCCT
1 ATAGTCGA-ATGATCATTTTGTAACTATTAATAGCCGAAAGACTCAACAAAACAATACCCT
553371 ATAGTCG
1 ATAGTCG
553378 GGGACCATTT
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
59 1 0.02
60 56 0.98
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.31
Consensus pattern (60 bp):
ATAGTCGAATGATCATTTTGTAACTATTAATAGCCGAAAGACTCAACAAAACAATACCCT
Found at i:558103 original size:12 final size:13
Alignment explanation
Indices: 558086--558114 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
558076 AATGAAACTC
558086 ACGTCACTACAA-
1 ACGTCACTACAAT
558098 ACGTCACTACAAT
1 ACGTCACTACAAT
558111 ACGT
1 ACGT
558115 ATTGCCTGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.38, C:0.31, G:0.10, T:0.21
Consensus pattern (13 bp):
ACGTCACTACAAT
Found at i:560392 original size:2 final size:2
Alignment explanation
Indices: 560385--560409 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
560375 TAAATAATTT
560385 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
560410 TATTAATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:574596 original size:60 final size:60
Alignment explanation
Indices: 574474--574598 Score: 142
Period size: 60 Copynumber: 2.1 Consensus size: 60
574464 AATATAATAA
** * * * **
574474 ATAGTCGGGTGATTATTTTATAACTTTTAACAGTCAAAGGACTTAACAAAGTAACATTCT
1 ATAGTCGAATGATTATTTCATAACTTTTAACAATCAAAGGACTTAACAAAGCAACACCCT
* * * * *
574534 ATAGTCGAATGATTATTTCGTAACTTTTAATAATCAAGGGACTTAATAAAGCAATACCCT
1 ATAGTCGAATGATTATTTCATAACTTTTAACAATCAAAGGACTTAACAAAGCAACACCCT
574594 ATAGT
1 ATAGT
574599 TGGTGGACCA
Statistics
Matches: 53, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
60 53 1.00
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (60 bp):
ATAGTCGAATGATTATTTCATAACTTTTAACAATCAAAGGACTTAACAAAGCAACACCCT
Found at i:577211 original size:24 final size:23
Alignment explanation
Indices: 577168--577212 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
577158 AAGTTGTATT
*
577168 ATTAGAAAAAAAAACTAAAATAC
1 ATTAGAAAAAAAAACGAAAATAC
577191 ATTAGGAAAAAGAAAA-GAAAAT
1 ATTA-GAAAAA-AAAACGAAAAT
577213 TGATAGAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 4 0.21
24 11 0.58
25 4 0.21
ACGTcount: A:0.69, C:0.04, G:0.11, T:0.16
Consensus pattern (23 bp):
ATTAGAAAAAAAAACGAAAATAC
Found at i:583722 original size:22 final size:21
Alignment explanation
Indices: 583697--583739 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
583687 AATTTATTTT
*
583697 TTAAAATAAATTATTAAAAATA
1 TTAAAAT-AATTATAAAAAATA
* *
583719 TTAAGATATTTATAAAAAATA
1 TTAAAATAATTATAAAAAATA
583740 ACTTTTCATA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (21 bp):
TTAAAATAATTATAAAAAATA
Found at i:587945 original size:109 final size:110
Alignment explanation
Indices: 587746--587964 Score: 431
Period size: 109 Copynumber: 2.0 Consensus size: 110
587736 AAAGAAAATT
587746 ACTCTAAGCTTATTTTAAAAATTAGAGTACATTACAAATTTCATCATTGAACTTTACTCTCTCAT
1 ACTCTAAGCTTATTTTAAAAATTAGAGTACATTACAAATTTCATCATTGAACTTTACTCTCTCAT
587811 ATTTTGTTCACTGAACTTTAAAAGTTTTCAATCTCGTCACTAAAC
66 ATTTTGTTCACTGAACTTTAAAAGTTTTCAATCTCGTCACTAAAC
587856 ACTCTAA-CTTATTTTAAAAATTAGAGTACATTACAAATTTCATCATTGAACTTTACTCTCTCAT
1 ACTCTAAGCTTATTTTAAAAATTAGAGTACATTACAAATTTCATCATTGAACTTTACTCTCTCAT
587920 ATTTTGTTCACTGAACTTTAAAAGTTTTCAATCTCGTCACTAAAC
66 ATTTTGTTCACTGAACTTTAAAAGTTTTCAATCTCGTCACTAAAC
587965 TTAACGTTAG
Statistics
Matches: 109, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
109 102 0.94
110 7 0.06
ACGTcount: A:0.34, C:0.19, G:0.07, T:0.40
Consensus pattern (110 bp):
ACTCTAAGCTTATTTTAAAAATTAGAGTACATTACAAATTTCATCATTGAACTTTACTCTCTCAT
ATTTTGTTCACTGAACTTTAAAAGTTTTCAATCTCGTCACTAAAC
Found at i:590672 original size:87 final size:86
Alignment explanation
Indices: 590527--590697 Score: 297
Period size: 87 Copynumber: 2.0 Consensus size: 86
590517 TATAGTGCTA
*
590527 TACATTCAATTTCTAGGAAAAGGGGATTTTATTACGCTGTAGGAAGAAAATGGATTTGCTAACTG
1 TACATTCAATTTCTAGGAAAAGGGAATTTTATTACGCTGTAGGAAGAAAATGGATTTGCTAACTG
590592 GCACTGAAATAAAAATAATCT
66 GCACTGAAATAAAAATAATCT
*
590613 TACATTCATTTTCTAGGAAAAGGGAATTTTTATTACGCTGTAGGAAGAAAATGGATTTGCTAACT
1 TACATTCAATTTCTAGGAAAAGGGAA-TTTTATTACGCTGTAGGAAGAAAATGGATTTGCTAACT
* *
590678 TGCGCTGAAATAAAAATAAT
65 GGCACTGAAATAAAAATAAT
590698 TTCAGACATC
Statistics
Matches: 80, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
86 24 0.30
87 56 0.70
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (86 bp):
TACATTCAATTTCTAGGAAAAGGGAATTTTATTACGCTGTAGGAAGAAAATGGATTTGCTAACTG
GCACTGAAATAAAAATAATCT
Found at i:597155 original size:44 final size:44
Alignment explanation
Indices: 597092--597182 Score: 173
Period size: 44 Copynumber: 2.1 Consensus size: 44
597082 TAAACTATAT
*
597092 TTTCTTTAAAACTAAGAGAGGTTATGGTACCATTGACGGGATGC
1 TTTCTTTAAAACTAAGAGAGGTTATGGTACCATTGACGGGATAC
597136 TTTCTTTAAAACTAAGAGAGGTTATGGTACCATTGACGGGATAC
1 TTTCTTTAAAACTAAGAGAGGTTATGGTACCATTGACGGGATAC
597180 TTT
1 TTT
597183 TAAGAACTAT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.30, C:0.13, G:0.23, T:0.34
Consensus pattern (44 bp):
TTTCTTTAAAACTAAGAGAGGTTATGGTACCATTGACGGGATAC
Found at i:597560 original size:23 final size:23
Alignment explanation
Indices: 597511--597560 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
597501 TACCCTTTGT
** *
597511 TTTAAATAATTTATCTTTAAATT
1 TTTAAATAATTTATAGTTAAATA
* *
597534 TTTAATTAATTTATAGTTATATA
1 TTTAAATAATTTATAGTTAAATA
597557 TTTA
1 TTTA
597561 GTACTTAGAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (23 bp):
TTTAAATAATTTATAGTTAAATA
Found at i:609844 original size:38 final size:38
Alignment explanation
Indices: 609793--609869 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
609783 GCTGTTCACC
609793 TCCTATATTTATGTAAAAATAAAATAATAGAAATATTA
1 TCCTATATTTATGTAAAAATAAAATAATAGAAATATTA
609831 TCCTATATTTATGTAAAAATAAAATAATAGAAATATTA
1 TCCTATATTTATGTAAAAATAAAATAATAGAAATATTA
609869 T
1 T
609870 TTATAAACAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.38
Consensus pattern (38 bp):
TCCTATATTTATGTAAAAATAAAATAATAGAAATATTA
Found at i:611042 original size:27 final size:28
Alignment explanation
Indices: 610988--611042 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
610978 AAGGTCAATA
****
610988 ACAAGCATGTTCTAATTTTTTTTTGGTT
1 ACAAGCATGTTCTAATTTTTAAGAGGTT
611016 ACAAGCATGTTCTAA-TTTTAAGAGGTT
1 ACAAGCATGTTCTAATTTTTAAGAGGTT
611043 TCTAATTCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
27 8 0.35
28 15 0.65
ACGTcount: A:0.27, C:0.11, G:0.16, T:0.45
Consensus pattern (28 bp):
ACAAGCATGTTCTAATTTTTAAGAGGTT
Found at i:612232 original size:11 final size:11
Alignment explanation
Indices: 612202--612233 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
612192 ATTGACCAAA
*
612202 AACCCGACGCT
1 AACCCGACTCT
612213 AACCCGACTCT
1 AACCCGACTCT
612224 AACCCGACTC
1 AACCCGACTC
612234 GTTTCCATCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.28, C:0.47, G:0.12, T:0.12
Consensus pattern (11 bp):
AACCCGACTCT
Found at i:613515 original size:20 final size:20
Alignment explanation
Indices: 613451--613506 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
613441 TCTCTGGCTC
*
613451 AAAGGATCGAGCCTTTAGCA
1 AAAGGATCGATCCTTTAGCA
*
613471 AAAGGATCGATCCCTTAGCA
1 AAAGGATCGATCCTTTAGCA
613491 AAAGGATCGATCCTTT
1 AAAGGATCGATCCTTT
613507 GGTTAAAGGG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.23
Consensus pattern (20 bp):
AAAGGATCGATCCTTTAGCA
Found at i:613534 original size:21 final size:21
Alignment explanation
Indices: 613494--613534 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
613484 CTTAGCAAAA
**
613494 GGATCGATCCTTTGGTTAAAG
1 GGATCGATCCTTTGACTAAAG
*
613515 GGATCGATCTTTTGACTAAA
1 GGATCGATCCTTTGACTAAA
613535 AGATTGATCC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.34
Consensus pattern (21 bp):
GGATCGATCCTTTGACTAAAG
Found at i:614822 original size:20 final size:20
Alignment explanation
Indices: 614789--614845 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
614779 TTTTATGTAG
* * *
614789 AAATTTTAACCTTATATTTT
1 AAATTATAAACTTAAATTTT
614809 AAATTATAAACTTAAATTTT
1 AAATTATAAACTTAAATTTT
*
614829 AAACTT-TAAATTTAAAT
1 AAA-TTATAAACTTAAAT
614846 CCTAAACTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 30 0.94
21 2 0.06
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.47
Consensus pattern (20 bp):
AAATTATAAACTTAAATTTT
Found at i:614823 original size:13 final size:13
Alignment explanation
Indices: 614807--614874 Score: 57
Period size: 13 Copynumber: 5.0 Consensus size: 13
614797 ACCTTATATT
614807 TTAAATTATAAAC
1 TTAAATTATAAAC
*
614820 TTAAATTTTAAAC
1 TTAAATTATAAAC
614833 TTTAAATT-TAAATC
1 -TTAAATTATAAA-C
* *
614847 CTAAACTTTTAAAC
1 TTAAA-TTATAAAC
*
614861 CTAAATTCATAAAC
1 TTAAATT-ATAAAC
614875 ATATACGATA
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
13 22 0.47
14 21 0.45
15 4 0.09
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (13 bp):
TTAAATTATAAAC
Found at i:614843 original size:33 final size:33
Alignment explanation
Indices: 614789--614854 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 33
614779 TTTTATGTAG
* *
614789 AAATTTTAACCTTATATTTTAAATTATAAACTT
1 AAATTTTAACCTTATAATTTAAATCATAAACTT
* *
614822 AAATTTTAAACTT-TAAATTTAAATCCTAAACTT
1 AAATTTTAACCTTAT-AATTTAAATCATAAACTT
614855 TTAAACCTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 1 0.04
33 27 0.96
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.45
Consensus pattern (33 bp):
AAATTTTAACCTTATAATTTAAATCATAAACTT
Found at i:614865 original size:21 final size:20
Alignment explanation
Indices: 614828--614866 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
614818 ACTTAAATTT
**
614828 TAAACTTTAAATTTAAATCC
1 TAAACTTTAAACCTAAATCC
614848 TAAACTTTTAAACCTAAAT
1 TAAAC-TTTAAACCTAAAT
614867 TCATAAACAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (20 bp):
TAAACTTTAAACCTAAATCC
Found at i:614937 original size:2 final size:2
Alignment explanation
Indices: 614930--614979 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
614920 CAATGAATGA
614930 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
614972 AT AT AT AT
1 AT AT AT AT
614980 TTGAATAAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:625413 original size:18 final size:18
Alignment explanation
Indices: 625390--625427 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
625380 CAGGAACACA
625390 GGATTC-GGGTACGAAGTT
1 GGATTCAGGG-ACGAAGTT
625408 GGATTCAGGGACGAAGTT
1 GGATTCAGGGACGAAGTT
625426 GG
1 GG
625428 CAGCCATAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.24, C:0.11, G:0.42, T:0.24
Consensus pattern (18 bp):
GGATTCAGGGACGAAGTT
Found at i:633618 original size:42 final size:42
Alignment explanation
Indices: 633548--633633 Score: 136
Period size: 42 Copynumber: 2.0 Consensus size: 42
633538 CTAGATTAAT
633548 AAAACAAAAGCGTTAAAGCTTATACAAAATAAATTATTCATC
1 AAAACAAAAGCGTTAAAGCTTATACAAAATAAATTATTCATC
* * * *
633590 AAAACAAAAGTGTTAATGTTTATGCAAAATAAATTATTCATC
1 AAAACAAAAGCGTTAAAGCTTATACAAAATAAATTATTCATC
633632 AA
1 AA
633634 TTGGTTGTGG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.51, C:0.12, G:0.08, T:0.29
Consensus pattern (42 bp):
AAAACAAAAGCGTTAAAGCTTATACAAAATAAATTATTCATC
Found at i:636525 original size:169 final size:169
Alignment explanation
Indices: 636246--636584 Score: 678
Period size: 169 Copynumber: 2.0 Consensus size: 169
636236 TCCGCACCTT
636246 CCGTTGGAATCTTACCGCCAGTGCTGCAAGACCAAATCCTCAGGTATCCTACCACTACGGTGCTA
1 CCGTTGGAATCTTACCGCCAGTGCTGCAAGACCAAATCCTCAGGTATCCTACCACTACGGTGCTA
636311 TTAACATCACTCGTACCATCAGGCTGGTGAACAATGTTAGCAGAGCCAACGGTAAGCTCCGCTAC
66 TTAACATCACTCGTACCATCAGGCTGGTGAACAATGTTAGCAGAGCCAACGGTAAGCTCCGCTAC
636376 GACTTTAACGATGTCTCCCACACCGACCCAACCACCCCA
131 GACTTTAACGATGTCTCCCACACCGACCCAACCACCCCA
636415 CCGTTGGAATCTTACCGCCAGTGCTGCAAGACCAAATCCTCAGGTATCCTACCACTACGGTGCTA
1 CCGTTGGAATCTTACCGCCAGTGCTGCAAGACCAAATCCTCAGGTATCCTACCACTACGGTGCTA
636480 TTAACATCACTCGTACCATCAGGCTGGTGAACAATGTTAGCAGAGCCAACGGTAAGCTCCGCTAC
66 TTAACATCACTCGTACCATCAGGCTGGTGAACAATGTTAGCAGAGCCAACGGTAAGCTCCGCTAC
636545 GACTTTAACGATGTCTCCCACACCGACCCAACCACCCCA
131 GACTTTAACGATGTCTCCCACACCGACCCAACCACCCCA
636584 C
1 C
636585 TGAAGTTGAC
Statistics
Matches: 170, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
169 170 1.00
ACGTcount: A:0.27, C:0.34, G:0.18, T:0.21
Consensus pattern (169 bp):
CCGTTGGAATCTTACCGCCAGTGCTGCAAGACCAAATCCTCAGGTATCCTACCACTACGGTGCTA
TTAACATCACTCGTACCATCAGGCTGGTGAACAATGTTAGCAGAGCCAACGGTAAGCTCCGCTAC
GACTTTAACGATGTCTCCCACACCGACCCAACCACCCCA
Found at i:637678 original size:31 final size:31
Alignment explanation
Indices: 637636--637728 Score: 177
Period size: 31 Copynumber: 3.0 Consensus size: 31
637626 AAGTGTTCTA
*
637636 TACGAGTTGTGGCGAGAGGATGAAGCTTTGC
1 TACGAGCTGTGGCGAGAGGATGAAGCTTTGC
637667 TACGAGCTGTGGCGAGAGGATGAAGCTTTGC
1 TACGAGCTGTGGCGAGAGGATGAAGCTTTGC
637698 TACGAGCTGTGGCGAGAGGATGAAGCTTTGC
1 TACGAGCTGTGGCGAGAGGATGAAGCTTTGC
637729 ATGCGCCATG
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 61 1.00
ACGTcount: A:0.23, C:0.15, G:0.39, T:0.24
Consensus pattern (31 bp):
TACGAGCTGTGGCGAGAGGATGAAGCTTTGC
Found at i:638257 original size:21 final size:20
Alignment explanation
Indices: 638217--638253 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
638207 TTTTTAAATT
638217 TTTTAATAATAAAAATATTA
1 TTTTAATAATAAAAATATTA
*
638237 TTTTAATTA-AAAAATAT
1 TTTTAATAATAAAAATAT
638254 ATTAAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
TTTTAATAATAAAAATATTA
Found at i:642083 original size:29 final size:29
Alignment explanation
Indices: 642039--642150 Score: 206
Period size: 29 Copynumber: 3.9 Consensus size: 29
642029 TAACGGGGGT
*
642039 AGGTCGCCATGTACGCCCGGCGACCAACC
1 AGGTCGCCATGCACGCCCGGCGACCAACC
642068 AGGTCGCCATGCACGCCCGGCGACCAACC
1 AGGTCGCCATGCACGCCCGGCGACCAACC
642097 AGGTCGCCATGCACGCCCGGCGACCAACC
1 AGGTCGCCATGCACGCCCGGCGACCAACC
*
642126 AGGTCGCCATGCACGCCCTGCGACC
1 AGGTCGCCATGCACGCCCGGCGACC
642151 TACCCCACGA
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 81 1.00
ACGTcount: A:0.20, C:0.44, G:0.28, T:0.09
Consensus pattern (29 bp):
AGGTCGCCATGCACGCCCGGCGACCAACC
Found at i:642179 original size:10 final size:10
Alignment explanation
Indices: 642164--642256 Score: 68
Period size: 10 Copynumber: 9.3 Consensus size: 10
642154 CCCACGACCT
642164 CCATGCACGC
1 CCATGCACGC
642174 CCATGCACGC
1 CCATGCACGC
642184 CCATGCACGC
1 CCATGCACGC
*
642194 CCA-ACGAC-C
1 CCATGC-ACGC
*
642203 TCCATGCATGC
1 -CCATGCACGC
* *
642214 CCAGGCACGT
1 CCATGCACGC
*
642224 CCA-ACGAC-C
1 CCATGC-ACGC
*
642233 TCCATGCACGG
1 -CCATGCACGC
642244 CCATGCACGC
1 CCATGCACGC
642254 CCA
1 CCA
642257 ACGACCTCCA
Statistics
Matches: 64, Mismatches: 11, Indels: 16
0.70 0.12 0.18
Matches are distributed among these distances:
9 3 0.05
10 58 0.91
11 3 0.05
ACGTcount: A:0.23, C:0.47, G:0.19, T:0.11
Consensus pattern (10 bp):
CCATGCACGC
Found at i:642208 original size:30 final size:30
Alignment explanation
Indices: 642174--642276 Score: 161
Period size: 30 Copynumber: 3.4 Consensus size: 30
642164 CCATGCACGC
642174 CCATGCACGCCCATGCACGCCCAACGACCT
1 CCATGCACGCCCATGCACGCCCAACGACCT
* * *
642204 CCATGCATGCCCAGGCACGTCCAACGACCT
1 CCATGCACGCCCATGCACGCCCAACGACCT
*
642234 CCATGCACGGCCATGCACGCCCAACGACCT
1 CCATGCACGCCCATGCACGCCCAACGACCT
*
642264 CCATACACGCCCA
1 CCATGCACGCCCA
642277 GCTCGCCAAA
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 64 1.00
ACGTcount: A:0.24, C:0.48, G:0.17, T:0.11
Consensus pattern (30 bp):
CCATGCACGCCCATGCACGCCCAACGACCT
Found at i:642862 original size:21 final size:21
Alignment explanation
Indices: 642837--642880 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
642827 AATTTAGTTA
642837 ATTAGTTTGTTAGTATAAATT
1 ATTAGTTTGTTAGTATAAATT
* *
642858 ATTAGTTTGTTAGTTTAAGTT
1 ATTAGTTTGTTAGTATAAATT
642879 AT
1 AT
642881 ATTATTAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.55
Consensus pattern (21 bp):
ATTAGTTTGTTAGTATAAATT
Found at i:642892 original size:26 final size:26
Alignment explanation
Indices: 642855--642912 Score: 100
Period size: 26 Copynumber: 2.3 Consensus size: 26
642845 GTTAGTATAA
*
642855 ATTATTAGTTTGTTAGTTTAAGTTAT
1 ATTATTAATTTGTTAGTTTAAGTTAT
642881 ATTATTAATTTGTTAGTTTAAGTTAT
1 ATTATTAATTTGTTAGTTTAAGTTAT
642907 A-TATTA
1 ATTATTA
642913 GATTATATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 5 0.16
26 26 0.84
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.57
Consensus pattern (26 bp):
ATTATTAATTTGTTAGTTTAAGTTAT
Found at i:645644 original size:33 final size:32
Alignment explanation
Indices: 645576--645644 Score: 77
Period size: 34 Copynumber: 2.1 Consensus size: 32
645566 ACCCTTAAAC
*
645576 AACTAATAAAATATTTTTTTATATAACTAAAACT
1 AACTAATAAAATATTTTTTCATATAACT--AACT
*
645610 AACTAATAAACTATTTTTTCATTATATACT-ACT
1 AACTAATAAAATATTTTTTCA-TATA-ACTAACT
645643 AA
1 AA
645645 TAAACTTACT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
33 5 0.16
34 19 0.61
35 4 0.13
36 3 0.10
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.42
Consensus pattern (32 bp):
AACTAATAAAATATTTTTTCATATAACTAACT
Found at i:645677 original size:11 final size:11
Alignment explanation
Indices: 645652--645682 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
645642 TAATAAACTT
645652 ACTAACTAA-A
1 ACTAACTAATA
645662 ACTAACTAATA
1 ACTAACTAATA
645673 ACTAACTAAT
1 ACTAACTAAT
645683 TTTTTATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.55, C:0.19, G:0.00, T:0.26
Consensus pattern (11 bp):
ACTAACTAATA
Found at i:645802 original size:45 final size:48
Alignment explanation
Indices: 645712--645802 Score: 129
Period size: 44 Copynumber: 2.0 Consensus size: 48
645702 CAACAAACAA
645712 ATATAACTTAACTATTTAACTAACAAAAACTAATTAAATAATTTTTTT
1 ATATAACTTAACTATTTAACTAACAAAAACTAATTAAATAATTTTTTT
*
645760 ATATAAC-TAACTA-TTAAC-AA-AACAAACTAATT-AATTATTTTTT
1 ATATAACTTAACTATTTAACTAACAA-AAACTAATTAAATAATTTTTT
645803 AACTATATAA
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
44 12 0.29
45 11 0.27
46 5 0.12
47 6 0.15
48 7 0.17
ACGTcount: A:0.48, C:0.11, G:0.00, T:0.41
Consensus pattern (48 bp):
ATATAACTTAACTATTTAACTAACAAAAACTAATTAAATAATTTTTTT
Found at i:645871 original size:41 final size:40
Alignment explanation
Indices: 645783--645871 Score: 90
Period size: 41 Copynumber: 2.2 Consensus size: 40
645773 TTAACAAAAC
* *
645783 AAACTAATTAATTATTTTTTAACTATATAACTATCAAACAT
1 AAACTAATTAAATAATTTTTAACTATATAACTAT-AAACAT
* * * *
645824 ATACTAATTAAATAATTTTTAATTTATGTATACTAT-AACTT
1 AAACTAATTAAATAATTTTTAA-CTATATA-ACTATAAACAT
645865 AAACTAA
1 AAACTAA
645872 CAATCATATA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
41 29 0.74
42 5 0.13
43 5 0.13
ACGTcount: A:0.46, C:0.10, G:0.01, T:0.43
Consensus pattern (40 bp):
AAACTAATTAAATAATTTTTAACTATATAACTATAAACAT
Found at i:645936 original size:16 final size:18
Alignment explanation
Indices: 645907--645945 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
645897 ACTAATTAAC
*
645907 ATTTATAATAATAAACTA
1 ATTTATAATAATAAACAA
645925 ATTTA-AAT-ATAAACAA
1 ATTTATAATAATAAACAA
645941 ATTTA
1 ATTTA
645946 CCTTATCTCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 12 0.60
17 3 0.15
18 5 0.25
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (18 bp):
ATTTATAATAATAAACAA
Found at i:646211 original size:49 final size:48
Alignment explanation
Indices: 646157--646257 Score: 168
Period size: 49 Copynumber: 2.1 Consensus size: 48
646147 TAGGATCACA
*
646157 TGGCATGC-TGTAGGCATGCAGCGGGGAGCAGGAGCACGTGAAGTTATCT
1 TGGCATGCATGCAGGCATGCAGC-GGGAGCAGGAGCACGTGAAGTTAT-T
646206 TGGCATGCATGCAGGCATGCAGCGGGAGCAGGAGCACGTGAAGTTATT
1 TGGCATGCATGCAGGCATGCAGCGGGAGCAGGAGCACGTGAAGTTATT
646254 TGGC
1 TGGC
646258 TGGTGCATGC
Statistics
Matches: 50, Mismatches: 1, Indels: 3
0.93 0.02 0.06
Matches are distributed among these distances:
48 5 0.10
49 32 0.64
50 13 0.26
ACGTcount: A:0.23, C:0.19, G:0.39, T:0.20
Consensus pattern (48 bp):
TGGCATGCATGCAGGCATGCAGCGGGAGCAGGAGCACGTGAAGTTATT
Found at i:646228 original size:50 final size:47
Alignment explanation
Indices: 646157--646270 Score: 167
Period size: 49 Copynumber: 2.4 Consensus size: 47
646147 TAGGATCACA
*
646157 TGGCATGCTGTAGGCATGCAGCGGGGAGCAGGAGCACGTGAAGTTATCT
1 TGGCATGCTGCAGGCATGCAGC-GGGAGCAGGAGCACGTGAAGTTAT-T
646206 TGGCATGCATGCAGGCATGCAGCGGGAGCAGGAGCACGTGAAGTTATT
1 TGGCATGC-TGCAGGCATGCAGCGGGAGCAGGAGCACGTGAAGTTATT
* *
646254 TGGC-TGGTGCATGCATG
1 TGGCATGCTGCAGGCATG
646271 GTCGGCTGGT
Statistics
Matches: 61, Mismatches: 3, Indels: 5
0.88 0.04 0.07
Matches are distributed among these distances:
46 9 0.15
47 2 0.03
48 5 0.08
49 32 0.52
50 13 0.21
ACGTcount: A:0.22, C:0.18, G:0.39, T:0.21
Consensus pattern (47 bp):
TGGCATGCTGCAGGCATGCAGCGGGAGCAGGAGCACGTGAAGTTATT
Found at i:646279 original size:19 final size:19
Alignment explanation
Indices: 646255--646291 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
646245 GAAGTTATTT
646255 GGCTGGTGCATGCATGGTC
1 GGCTGGTGCATGCATGGTC
646274 GGCTGGTGCATGCATGGT
1 GGCTGGTGCATGCATGGT
646292 TTGCAGGGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.11, C:0.19, G:0.43, T:0.27
Consensus pattern (19 bp):
GGCTGGTGCATGCATGGTC
Found at i:646398 original size:28 final size:28
Alignment explanation
Indices: 646360--646416 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
646350 CGCCCAGACT
*
646360 GCATGGCGACCTCTCTATTGGCTGGCTC
1 GCATGGCGACCTCTCCATTGGCTGGCTC
*
646388 GCATGGCGACCTCTCCGTTGGCTGGCTC
1 GCATGGCGACCTCTCCATTGGCTGGCTC
646416 G
1 G
646417 TCTGCATGGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.09, C:0.33, G:0.32, T:0.26
Consensus pattern (28 bp):
GCATGGCGACCTCTCCATTGGCTGGCTC
Found at i:646430 original size:28 final size:28
Alignment explanation
Indices: 646399--646454 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
646389 CATGGCGACC
646399 TCTCCGTTGGCTGGCTCGTCTGCATGGT
1 TCTCCGTTGGCTGGCTCGTCTGCATGGT
646427 TCTCCGTTGGCTGGCTCGTCTGCATGGT
1 TCTCCGTTGGCTGGCTCGTCTGCATGGT
646455 GAGTATATGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.04, C:0.29, G:0.32, T:0.36
Consensus pattern (28 bp):
TCTCCGTTGGCTGGCTCGTCTGCATGGT
Found at i:646490 original size:17 final size:18
Alignment explanation
Indices: 646468--646503 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
646458 TATATGGCTT
646468 GTATGG-CGTCTGCATGG
1 GTATGGCCGTCTGCATGG
646485 GTATGGCTCGTCTGCATGG
1 GTATGGC-CGTCTGCATGG
646504 TGAGTATATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
19 11 0.65
ACGTcount: A:0.11, C:0.19, G:0.39, T:0.31
Consensus pattern (18 bp):
GTATGGCCGTCTGCATGG
Found at i:646546 original size:29 final size:29
Alignment explanation
Indices: 646513--646587 Score: 141
Period size: 29 Copynumber: 2.6 Consensus size: 29
646503 GTGAGTATAT
646513 GGCGTGCATGGCGACCTGGTTGGTCGCCG
1 GGCGTGCATGGCGACCTGGTTGGTCGCCG
646542 GGCGTGCATGGCGACCTGGTTGGTCGCCG
1 GGCGTGCATGGCGACCTGGTTGGTCGCCG
*
646571 GGCGTACATGGCGACCT
1 GGCGTGCATGGCGACCT
646588 ACCTCCGTTA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 45 1.00
ACGTcount: A:0.09, C:0.28, G:0.43, T:0.20
Consensus pattern (29 bp):
GGCGTGCATGGCGACCTGGTTGGTCGCCG
Found at i:648461 original size:23 final size:24
Alignment explanation
Indices: 648435--648485 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
648425 TTAAATATTG
* *
648435 AAAAAAATGAAAGTT-TAGGTACT
1 AAAAAAATAAAAATTATAGGTACT
**
648458 AAAAGGATAAAAATTATAGGTACT
1 AAAAAAATAAAAATTATAGGTACT
648482 AAAA
1 AAAA
648486 TAGGCCAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 11 0.48
24 12 0.52
ACGTcount: A:0.57, C:0.04, G:0.16, T:0.24
Consensus pattern (24 bp):
AAAAAAATAAAAATTATAGGTACT
Found at i:649485 original size:39 final size:39
Alignment explanation
Indices: 649439--649565 Score: 144
Period size: 39 Copynumber: 3.4 Consensus size: 39
649429 CATTTTGAAA
* * *
649439 ATATAATATATATTTTTTA-AAAACATTTTGGGAAAATTT
1 ATATAATATATAGTTTTAACAAAACATTTT-GGAAAACTT
649478 ATATAATATATAGTTTTAACAAAACATTTTGGAAAACTT
1 ATATAATATATAGTTTTAACAAAACATTTTGGAAAACTT
* *
649517 ATAT-A-ATAT--TTTT-A-AAATCATTTTTGAAAAC-T
1 ATATAATATATAGTTTTAACAAAACATTTTGGAAAACTT
649549 ATATAATATATAGTTTT
1 ATATAATATATAGTTTT
649566 GAAAATGTTT
Statistics
Matches: 78, Mismatches: 5, Indels: 13
0.81 0.05 0.14
Matches are distributed among these distances:
32 5 0.06
33 16 0.21
34 5 0.06
35 4 0.05
36 4 0.05
37 4 0.05
38 1 0.01
39 29 0.37
40 10 0.13
ACGTcount: A:0.44, C:0.05, G:0.06, T:0.45
Consensus pattern (39 bp):
ATATAATATATAGTTTTAACAAAACATTTTGGAAAACTT
Found at i:649507 original size:73 final size:69
Alignment explanation
Indices: 649386--649570 Score: 200
Period size: 71 Copynumber: 2.7 Consensus size: 69
649376 AATATACAAG
* * * *
649386 TTTT-AAAACATTTTGG-AAATTATGTAGTATATAGTTTTGAAATCATTTT-GAAAA--TATAAT
1 TTTTAAAAACATTTTGGAAAATTATATAATATATAGTTTTCAAAACATTTTGGAAAACTTAT-AT
649446 ATATATT
65 A-ATA-T
649453 TTTTAAAAACATTTTGGGAAAATTTATATAATATATAGTTTTAACAAAACATTTTGGAAAACTTA
1 TTTTAAAAACATTTT-GGAAAA-TTATATAATATATAGTTTT--CAAAACATTTTGGAAAACTTA
649518 TATAATAT
62 TATAATAT
* * * *
649526 TTTTAAAATCATTTTTGAAAACTATATAATATATAGTTTTGAAAA
1 TTTTAAAAACATTTTGGAAAATTATATAATATATAGTTTTCAAAA
649571 TGTTTTTATA
Statistics
Matches: 101, Mismatches: 8, Indels: 16
0.81 0.06 0.13
Matches are distributed among these distances:
67 4 0.04
68 10 0.10
69 6 0.06
70 3 0.03
71 35 0.35
72 5 0.05
73 24 0.24
74 8 0.08
75 3 0.03
76 3 0.03
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.44
Consensus pattern (69 bp):
TTTTAAAAACATTTTGGAAAATTATATAATATATAGTTTTCAAAACATTTTGGAAAACTTATATA
ATAT
Found at i:652132 original size:16 final size:17
Alignment explanation
Indices: 652111--652142 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
652101 CTCACTAACC
652111 CTTTTATTTT-TGTTCT
1 CTTTTATTTTGTGTTCT
652127 CTTTTATTTTGTGTTC
1 CTTTTATTTTGTGTTC
652143 ATCGTTTGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.06, C:0.12, G:0.09, T:0.72
Consensus pattern (17 bp):
CTTTTATTTTGTGTTCT
Found at i:656333 original size:85 final size:84
Alignment explanation
Indices: 656185--656938 Score: 821
Period size: 85 Copynumber: 9.0 Consensus size: 84
656175 TAAACAAACT
* *
656185 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCGACCAAAGACCCCCGAGTTCGATTACA
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTAT-TTCTGACCAAAGACCCCCGAGTTCGATTACA
656250 CTCAGCTTCGAGGGCACATC
65 CTCAGCTTCGAGGGCACATC
* * * * *
656270 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATTTATGACCAAAAGACCCCCGAGTTCGATTACA
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATTTCTGACC-AAAGACCCCCGAGTTCGATTACA
656335 CTCAGCTTCGAGGGCACATC
65 CTCAGCTTCGAGGGCACATC
* ** ** * *
656355 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTAT-TTCTGACCAAAGACCCCCGAGTTCGATTACA
* *
656420 CTCAGC-TCCAAGGCACATC
65 CTCAGCTTCGAGGGCACATC
* * * *
656439 ATTTGCAGTATAGCTTAAGTCGAGAAGGGCTA--TCTG-CCAAAGACCCCCGAGTTAGATTACAC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATTTCTGACCAAAGACCCCCGAGTTCGATTACAC
*
656501 TCAGTTTCGAGGGCACATC
66 TCAGCTTCGAGGGCACATC
* * * * * *
656520 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCCCCGAGTTCGATTACA
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATTTCTGACC-AAAGACCCCCGAGTTCGATTACA
656585 CTCAGCTTCGAGGGCACATC
65 CTCAGCTTCGAGGGCACATC
* ** ** * *
656605 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTAT-TTCTGACCAAAGACCCCCGAGTTCGATTACA
* *
656670 CTCAGC-TCCAAGGCACATC
65 CTCAGCTTCGAGGGCACATC
* * * * *
656689 ATTTGCAGTATAGCTTAAGTCGAGAAGGGCTA--TCTG-CCAAAGACCCCCTAGTTAGATTACAC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATTTCTGACCAAAGACCCCCGAGTTCGATTACAC
*
656751 TCAGCTTCGAGGGCACATT
66 TCAGCTTCGAGGGCACATC
* * * * * *** ** *
656770 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTTGAGTTCGGCTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATTTCTGACC-AAAGACCCCCGAGTTCGATTACA
* **
656835 CTCAGC-TCAACTGCACATC
65 CTCAGCTTCGAGGGCACATC
* *
656854 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTA--TCTG-CCAAAGACCCCCGAGTTCGATTACAC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATTTCTGACCAAAGACCCCCGAGTTCGATTACAC
* * *
656916 TCAACTTCGAGGTCATATC
66 TCAGCTTCGAGGGCACATC
656935 ATTT
1 ATTT
656939 ACAACATAGC
Statistics
Matches: 543, Mismatches: 112, Indels: 32
0.79 0.16 0.05
Matches are distributed among these distances:
80 72 0.13
81 88 0.16
82 3 0.01
83 6 0.01
84 125 0.23
85 242 0.45
86 7 0.01
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.24
Consensus pattern (84 bp):
ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATTTCTGACCAAAGACCCCCGAGTTCGATTACAC
TCAGCTTCGAGGGCACATC
Found at i:656630 original size:250 final size:250
Alignment explanation
Indices: 656185--656893 Score: 1186
Period size: 250 Copynumber: 2.8 Consensus size: 250
656175 TAAACAAACT
* * * *
656185 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCGACCAAAGACCCCCGAGTTCGATTACA
1 ATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCT---G-CCAAAGACCCCCGAGTTAGATTACA
* *
656250 CTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATTTATGACCAAAA
62 CTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAA
656315 GACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGA
127 GACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGA
656380 AGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
192 AGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
656439 ATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTAGATTACACTCA
1 ATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTAGATTACACTCA
*
656504 GTTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACC
66 GCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACC
656569 CCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGG
131 CCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGG
656634 TTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
196 TTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
*
656689 ATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCTAGTTAGATTACACTCA
1 ATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTAGATTACACTCA
* *
656754 GCTTCGAGGGCACATTATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACC
66 GCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACC
*** ** * * ** *
656819 TTTGAGTTCGGCTACGCTCAGC-TCAACTGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGG
131 CCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGG
*
656883 CTATCTGCCAA
196 TTATCTGCCAA
656894 AGACCCCCGA
Statistics
Matches: 433, Mismatches: 22, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
249 48 0.11
250 352 0.81
251 1 0.00
254 32 0.07
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (250 bp):
ATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTAGATTACACTCA
GCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACC
CCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGG
TTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
Found at i:656776 original size:165 final size:166
Alignment explanation
Indices: 656185--656963 Score: 874
Period size: 165 Copynumber: 4.7 Consensus size: 166
656175 TAAACAAACT
656185 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCGACCAAAGACCCCCGAGTTCGATTACA
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCT---GACCAAAGACCCCCGAGTTCGATTACA
* * * *
656250 CTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATTTATGACCAAAA
63 CTCAGCTTCGAGGGCACATCATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGTGACCAAAA
* * *
656315 GACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATC
128 GACCCCCGAGTTCGACTACACTCAGC-TCCAAGGCACATC
** * *
656355 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTG---ACCAAAGACCCCCGAGTTCGATTACA
* * * * * * *
656420 CTCAGC-TCCAAGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATC--TG-CC-AAA
63 CTCAGCTTCGAGGGCACATCATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGTGACCAAAA
* * * * *
656480 GACCCCCGAGTTAGATTACACTCAGTTTCGAGGGCACATC
128 GACCCCCGAGTTCGACTACACTCAG-CTCCAAGGCACATC
* * * *
656520 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCCCCGAGTTCGATTACA
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATC--TGACC-AAAGACCCCCGAGTTCGATTACA
* * **
656585 CTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACC-AA
63 CTCAGCTTCGAGGGCACATCATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTG-TGACCAAA
** *
656649 AGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
127 AGACCCCCGAGTTCGACTACACTCAGCTCCAAGGCACATC
* * * * *
656689 ATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTG-CCAAAGACCCCCTAGTTAGATTACACTC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGACCAAAGACCCCCGAGTTCGATTACACTC
* *
656753 AGCTTCGAGGGCACATTATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGAC
66 AGCTTCGAGGGCACATCATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGTGACCAAAAGAC
*** * * *
656818 CTTTGAGTTCGGCTACGCTCAGCT-CAACTGCACATC
131 CCCCGAGTTCGACTACACTCAGCTCCAA-GGCACATC
* *
656854 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG-CCAAAGACCCCCGAGTTCGATTACACTC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGACCAAAGACCCCCGAGTTCGATTACACTC
* * * * * * *
656918 AACTTCGAGGTCATATCATTTACAACATAGCTCAAGGCAAGAAGGG
66 AGCTTCGAGGGCACATCATTTGCAGCATAACTCAAGGCGAGAAGGG
656964 CTATTTGTCA
Statistics
Matches: 527, Mismatches: 68, Indels: 33
0.84 0.11 0.05
Matches are distributed among these distances:
164 9 0.02
165 302 0.57
166 46 0.09
167 7 0.01
169 75 0.14
170 88 0.17
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.23
Consensus pattern (166 bp):
ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGACCAAAGACCCCCGAGTTCGATTACACTC
AGCTTCGAGGGCACATCATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGTGACCAAAAGAC
CCCCGAGTTCGACTACACTCAGCTCCAAGGCACATC
Found at i:657690 original size:34 final size:35
Alignment explanation
Indices: 657638--657837 Score: 164
Period size: 39 Copynumber: 5.7 Consensus size: 35
657628 TGAAAACTTA
*
657638 TATACAATATATAAGTTTT-AAAACATTTTGGAAAT
1 TATATAATATAT-AGTTTTAAAAACATTTTGGAAAT
* * * *
657673 TATGTAGTATATAGTTTTGAAATCATTTT-GAAA-
1 TATATAATATATAGTTTTAAAAACATTTTGGAAAT
*
657706 -ATATAATATATATTTTTTAAAAACATTTTGGGAAAATT
1 TATATAATATATA-GTTTTAAAAACATTTT-GG-AAA-T
657744 TATATAATATATAGTTTTAACAAAACATTTTGGAAAACT
1 TATATAATATATAGTTTT-A-AAAACATTTTGG-AAA-T
* * *
657783 TATAT-A-ATAT--TTTTAAAATCATTTTTGAAAAC
1 TATATAATATATAGTTTTAAAAACA-TTTTGGAAAT
*
657815 TATATAATATATAGTTTTGAAAA
1 TATATAATATATAGTTTTAAAAA
657838 TGTTTTTATA
Statistics
Matches: 134, Mismatches: 16, Indels: 29
0.75 0.09 0.16
Matches are distributed among these distances:
32 15 0.11
33 22 0.16
34 20 0.15
35 23 0.17
36 10 0.07
37 4 0.03
38 5 0.04
39 25 0.19
40 10 0.07
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.43
Consensus pattern (35 bp):
TATATAATATATAGTTTTAAAAACATTTTGGAAAT
Found at i:657752 original size:39 final size:39
Alignment explanation
Indices: 657604--657832 Score: 156
Period size: 39 Copynumber: 6.3 Consensus size: 39
657594 AAATAGGTAT
*** * *
657604 TATATAGTTTTTTTAAAACGTTTTTGAAAACTTATATACAA
1 TATATAGTTTTAACAAAACATTTTGGAAAACTTATAT--AA
* *
657645 TATATAAGTTTT---AAAACATTTTGG-AAA-TTATGTAG
1 TATAT-AGTTTTAACAAAACATTTTGGAAAACTTATATAA
* *
657680 TATATAGTTTT--GAAATCATTTT-G-AAA---ATATAA
1 TATATAGTTTTAACAAAACATTTTGGAAAACTTATATAA
* * *
657712 TATATATTTTTTA-AAAACATTTTGGGAAAATTTATATAA
1 TATATAGTTTTAACAAAACATTTT-GGAAAACTTATATAA
657751 TATATAGTTTTAACAAAACATTTTGGAAAACTTATAT-A
1 TATATAGTTTTAACAAAACATTTTGGAAAACTTATATAA
* *
657789 -ATAT--TTTT-A-AAATCATTTTTGAAAAC-TATATAA
1 TATATAGTTTTAACAAAACATTTTGGAAAACTTATATAA
657822 TATATAGTTTT
1 TATATAGTTTT
657833 GAAAATGTTT
Statistics
Matches: 159, Mismatches: 14, Indels: 35
0.76 0.07 0.17
Matches are distributed among these distances:
32 19 0.12
33 25 0.16
34 15 0.09
35 20 0.13
36 7 0.04
37 9 0.06
38 4 0.03
39 39 0.25
40 10 0.06
41 5 0.03
42 6 0.04
ACGTcount: A:0.42, C:0.05, G:0.08, T:0.45
Consensus pattern (39 bp):
TATATAGTTTTAACAAAACATTTTGGAAAACTTATATAA
Found at i:657796 original size:73 final size:69
Alignment explanation
Indices: 657643--657837 Score: 202
Period size: 71 Copynumber: 2.8 Consensus size: 69
657633 ACTTATATAC
** * * * *
657643 AATATATAAGTTTT-AAAACATTTTGG-AAATTATGTAGTATATAGTTTTGAAATCATTTTGAAA
1 AATATATATTTTTTAAAAACATTTTGGAAAATTATATAATATATAGTTTTCAAAACATTTTGAAA
657706 ATAT
66 ATAT
657710 AATATATATTTTTTAAAAACATTTTGGGAAAATTTATATAATATATAGTTTTAACAAAACATTTT
1 AATATATATTTTTTAAAAACATTTT-GGAAAA-TTATATAATATATAGTTTT--CAAAACATTTT
657775 GGAAAACT-T
62 -GAAAA-TAT
* * * *
657784 -ATATA-ATATTTTTAAAATCATTTTTGAAAACTATATAATATATAGTTTTGAAAA
1 AATATATAT-TTTTTAAAAACATTTTGGAAAATTATATAATATATAGTTTTCAAAA
657838 TGTTTTTATA
Statistics
Matches: 109, Mismatches: 10, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
67 12 0.11
68 10 0.09
69 6 0.06
70 3 0.03
71 35 0.32
72 7 0.06
73 29 0.27
74 6 0.06
75 1 0.01
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.43
Consensus pattern (69 bp):
AATATATATTTTTTAAAAACATTTTGGAAAATTATATAATATATAGTTTTCAAAACATTTTGAAA
ATAT
Found at i:657825 original size:108 final size:106
Alignment explanation
Indices: 657604--657837 Score: 246
Period size: 108 Copynumber: 2.2 Consensus size: 106
657594 AAATAGGTAT
* * *
657604 TATATAGTTTTTTTAAAACGTTTTTGAAAACTTATATACAATATATAAGTTTTAAAACATTTTGG
1 TATATA-TTTTTTAAAAACATTTTGGAAAACTTATATACAATATATAAGTTTTAAAACATTTTGG
*
657669 AAATTATGTAGTATATAGTTTTGAAATCATTTTGAAAATATAA
65 AAATTA-GTAGTATATAGTTTTAAAATCATTTTGAAAATATAA
*
657712 TATATATTTTTTAAAAACATTTTGGGAAAA-TT-TATATAATATAT-AGTTTTAACAAAACATTT
1 TATATATTTTTTAAAAACATTTT-GGAAAACTTATATACAATATATAAGTTTT---AAAACATTT
*
657774 TGGAAAACTTA-TA-TA-ATATTTTTAAAATCATTTTTGAAAACTATATAA
62 TGG-AAA-TTAGTAGTATATAGTTTTAAAATCA-TTTTG-AAA--ATATAA
* *
657822 TATATAGTTTTGAAAA
1 TATATATTTTTTAAAA
657838 TGTTTTTATA
Statistics
Matches: 108, Mismatches: 8, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
105 6 0.06
106 24 0.22
107 24 0.22
108 28 0.26
109 3 0.03
110 23 0.21
ACGTcount: A:0.43, C:0.05, G:0.09, T:0.44
Consensus pattern (106 bp):
TATATATTTTTTAAAAACATTTTGGAAAACTTATATACAATATATAAGTTTTAAAACATTTTGGA
AATTAGTAGTATATAGTTTTAAAATCATTTTGAAAATATAA
Found at i:658753 original size:13 final size:13
Alignment explanation
Indices: 658735--658769 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
658725 TTTGAGAGAC
658735 GAGAGAGAGCGCA
1 GAGAGAGAGCGCA
658748 GAGAGAGAGCGCA
1 GAGAGAGAGCGCA
658761 GAGAGAGAG
1 GAGAGAGAG
658770 GGAAAAACGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.40, C:0.11, G:0.49, T:0.00
Consensus pattern (13 bp):
GAGAGAGAGCGCA
Found at i:667717 original size:29 final size:29
Alignment explanation
Indices: 667680--667746 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
667670 TTGAAAACTT
* * *
667680 TAAAATTCAATGCAAAATAGTAGAGTGAG
1 TAAAGTTCAATGCAAAATAGGAGAGTGAA
* *
667709 TAAAGTTCAGTGTAAAATAGGAGAGTGAA
1 TAAAGTTCAATGCAAAATAGGAGAGTGAA
*
667738 TAATGTTCA
1 TAAAGTTCA
667747 GTGATGAAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.45, C:0.06, G:0.22, T:0.27
Consensus pattern (29 bp):
TAAAGTTCAATGCAAAATAGGAGAGTGAA
Found at i:667747 original size:29 final size:29
Alignment explanation
Indices: 667693--667749 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
667683 AATTCAATGC
* *
667693 AAAATAGTAGAGTGAGTAAAGTTCAGTGT
1 AAAATAGGAGAGTGAATAAAGTTCAGTGT
*
667722 AAAATAGGAGAGTGAATAATGTTCAGTG
1 AAAATAGGAGAGTGAATAAAGTTCAGTG
667750 ATGAAATTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.42, C:0.04, G:0.28, T:0.26
Consensus pattern (29 bp):
AAAATAGGAGAGTGAATAAAGTTCAGTGT
Found at i:694999 original size:2 final size:2
Alignment explanation
Indices: 694992--695023 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
694982 TTTAAGGAAG
694992 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
695024 ATTAATTCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:695844 original size:22 final size:23
Alignment explanation
Indices: 695812--695860 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 23
695802 TAAATTTTAA
*
695812 AAAAAATTAAAATTTTAAATACT
1 AAAAAATTAAAAGTTTAAATACT
*
695835 AAAAAA-TAAAAGTTTAAGTACT
1 AAAAAATTAAAAGTTTAAATACT
695857 AAAA
1 AAAA
695861 TTAATTTGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 18 0.75
23 6 0.25
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.29
Consensus pattern (23 bp):
AAAAAATTAAAAGTTTAAATACT
Found at i:713583 original size:47 final size:48
Alignment explanation
Indices: 713521--713622 Score: 188
Period size: 47 Copynumber: 2.1 Consensus size: 48
713511 CAACTTTTGA
*
713521 GTATGTCTCATCTTTTGTACTAGTGGCATGTAATGTAAATGAAATTGT
1 GTATGTCTCATCTTTTGTACTAGTGGCATGTAAAGTAAATGAAATTGT
713569 GTATGTC-CATCTTTTGTACTAGTGGCATGTAAAGTAAATGAAATTGT
1 GTATGTCTCATCTTTTGTACTAGTGGCATGTAAAGTAAATGAAATTGT
713616 GTATGTC
1 GTATGTC
713623 AGGTCAAAAT
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
47 46 0.87
48 7 0.13
ACGTcount: A:0.27, C:0.11, G:0.22, T:0.40
Consensus pattern (48 bp):
GTATGTCTCATCTTTTGTACTAGTGGCATGTAAAGTAAATGAAATTGT
Found at i:713921 original size:2 final size:2
Alignment explanation
Indices: 713861--713903 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
713851 AATGTGTGAG
713861 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
713903 T
1 T
713904 GTTGTGTATT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:717188 original size:13 final size:14
Alignment explanation
Indices: 717160--717188 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
717150 TAATTTTATA
717160 ATATTTTTACTATT
1 ATATTTTTACTATT
717174 ATATTTTTACT-TT
1 ATATTTTTACTATT
717187 AT
1 AT
717189 TTAATATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.27
14 11 0.73
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.66
Consensus pattern (14 bp):
ATATTTTTACTATT
Found at i:719016 original size:18 final size:18
Alignment explanation
Indices: 718993--719032 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
718983 CCAGCAGCCA
718993 CCGCAGCCATATAAGATG
1 CCGCAGCCATATAAGATG
*
719011 CCGCAGCCATATATGATG
1 CCGCAGCCATATAAGATG
719029 CCGC
1 CCGC
719033 CATCGCCTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.28, C:0.33, G:0.23, T:0.17
Consensus pattern (18 bp):
CCGCAGCCATATAAGATG
Found at i:722886 original size:51 final size:50
Alignment explanation
Indices: 722785--722891 Score: 124
Period size: 51 Copynumber: 2.1 Consensus size: 50
722775 GTACCTGATC
* * * * * *
722785 CGCGCTATACCCACGTGGCACCAGCTCACCGTATAGCGCGGTGCAGGGGG
1 CGCGCTATACCCACGTGACACCAGATCACCGTATAACACGGTACAAGGGG
* * *
722835 CGCGCTATACCCCACGTGACGCCATATCATCGTATAACACGGTACAAGGGG
1 CGCGCTATA-CCCACGTGACACCAGATCACCGTATAACACGGTACAAGGGG
722886 CGCGCT
1 CGCGCT
722892 TTACTGCTAT
Statistics
Matches: 47, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
50 9 0.19
51 38 0.81
ACGTcount: A:0.21, C:0.34, G:0.29, T:0.16
Consensus pattern (50 bp):
CGCGCTATACCCACGTGACACCAGATCACCGTATAACACGGTACAAGGGG
Found at i:723460 original size:37 final size:37
Alignment explanation
Indices: 723408--723481 Score: 114
Period size: 37 Copynumber: 2.0 Consensus size: 37
723398 TTGTTATTTA
*
723408 TTAATCTAGGCTGAATACAAAT-GATAATATCTTTTTT
1 TTAATCTAGGCTGAATACAAATAG-TAAAATCTTTTTT
*
723445 TTAATCTAGGGTGAATACAAATAGTAAAATCTTTTTT
1 TTAATCTAGGCTGAATACAAATAGTAAAATCTTTTTT
723482 AAACACAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
37 33 0.97
38 1 0.03
ACGTcount: A:0.36, C:0.09, G:0.12, T:0.42
Consensus pattern (37 bp):
TTAATCTAGGCTGAATACAAATAGTAAAATCTTTTTT
Found at i:724681 original size:15 final size:14
Alignment explanation
Indices: 724650--724703 Score: 56
Period size: 15 Copynumber: 3.8 Consensus size: 14
724640 TAGATTGAAT
*
724650 AAAAAATGTTACGAA
1 AAAAAATGTTA-TAA
*
724665 AAATAATGTTATAA
1 AAAAAATGTTATAA
*
724679 AAAAATATGTAAT-A
1 AAAAA-ATGTTATAA
724693 AAAAAATGTTA
1 AAAAAATGTTA
724704 AGAAAGGTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
13 5 0.15
14 12 0.36
15 16 0.48
ACGTcount: A:0.61, C:0.02, G:0.09, T:0.28
Consensus pattern (14 bp):
AAAAAATGTTATAA
Found at i:725894 original size:2 final size:2
Alignment explanation
Indices: 725887--725936 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
725877 CTCGACTTTG
725887 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
725929 AT AT AT AT
1 AT AT AT AT
725937 CCCCCTTGTT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:726627 original size:20 final size:22
Alignment explanation
Indices: 726583--726627 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
726573 CAGTTCAACG
*
726583 TATCCATGTTGAGTTTTTATAGA
1 TATCCATGTTGAG-TCTTATAGA
726606 TATCCATGTTGAG-CTT-TAGA
1 TATCCATGTTGAGTCTTATAGA
726626 TA
1 TA
726628 AGGTACATCG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 6 0.29
21 2 0.10
23 13 0.62
ACGTcount: A:0.27, C:0.11, G:0.18, T:0.44
Consensus pattern (22 bp):
TATCCATGTTGAGTCTTATAGA
Found at i:729851 original size:42 final size:42
Alignment explanation
Indices: 729786--729924 Score: 149
Period size: 42 Copynumber: 3.3 Consensus size: 42
729776 TGATGAAAAC
* * * *
729786 ATTTTT-TCACTAATGTTAGTTGGTGATTTGTAACGATAATT
1 ATTTTTATCACTAGTCTTAATTGGTGATTTGTAACAATAATT
* * *
729827 ATTTTTGTCACTGGTCTTAATTGGTGATTTGTGACAATAATT
1 ATTTTTATCACTAGTCTTAATTGGTGATTTGTAACAATAATT
* *
729869 GTTTTTATCACTAGTCTTAGTTGGTGATTTGTGTTAACAAT-ATT
1 ATTTTTATCACTAGTCTTAATTGGTGA-TT-TG-TAACAATAATT
729913 -TTTTTATCACTA
1 ATTTTTATCACTA
729925 TTGAAGTGAA
Statistics
Matches: 83, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
41 6 0.07
42 52 0.63
43 14 0.17
44 5 0.06
45 6 0.07
ACGTcount: A:0.24, C:0.09, G:0.17, T:0.50
Consensus pattern (42 bp):
ATTTTTATCACTAGTCTTAATTGGTGATTTGTAACAATAATT
Found at i:755806 original size:234 final size:226
Alignment explanation
Indices: 755399--755864 Score: 564
Period size: 234 Copynumber: 2.0 Consensus size: 226
755389 GGTACCTCAT
* * *
755399 AATTTCATTGTTTCCAAATCAAACTGCACCCAAATTCAACAAAAACATATTTAACATTAATTGAA
1 AATTTCATTATTTCCAAACCAAACTGCACCCAAATTCAACAAAAACATATTTAACATTAACTGAA
* * * **
755464 AAGCTTGGCAATGTAGTTCGTAAATCTATGTGATTTACACCATATCTCTGGAAATGTATGGTTCA
66 AAGCTTGACAATGTAGTTCATAAATCTATATGATTTACACCATATCTCTGGAAACATATGGTTCA
* * *
755529 GGGAACAAGGATAGACATGCACATAAATTCTGCAATGTCTTGTCAGTGGCATAAAAGATTTGGAG
131 AGGAACAAGGATAGACATGCACATAAATTCTGCAATGTCTTGTCAATGGCATAAAAGA-TTCG-G
755594 AAACATATGCAACAAAGATAATAA-TTGATTTTATTAA
194 ----ATATGCAACAAAGATAA-AAGTTGATTTTATTAA
* * ** *
755631 AATTTCATTATTTCTAAACCAAACTGCACCCAATTTCAAGGAAAACATA-TTAATCGTTTAACTG
1 AATTTCATTATTTCCAAACCAAACTGCACCCAAATTCAACAAAAACATATTTAA-C-ATTAACTG
** * *
755695 ATTAGCTTGACAATGTAG-T-ATAAGTTCGTAATATGATTTACACCATATCTCTGGAAACATGTG
64 AAAAGCTTGACAATGTAGTTCATAA-ATC-T-ATATGATTTACACCATATCTCTGGAAACATATG
* * *
755758 GTTTAAGGCACAA-GAGTAGACATGCACATAAGTTCTGCAATGTCTTGTCAATGGCATAAAAGAT
126 GTTCAAGGAACAAGGA-TAGACATGCACATAAATTCTGCAATGTCTTGTCAATGGCATAAAAGAT
*
755822 TCGGATATGCAACAAGGATAAAAGTTGATTTTATTAA
190 TCGGATATGCAACAAAGATAAAAGTTGATTTTATTAA
755859 AATTTC
1 AATTTC
755865 TATGTAACAT
Statistics
Matches: 203, Mismatches: 24, Indels: 18
0.83 0.10 0.07
Matches are distributed among these distances:
227 2 0.01
228 35 0.17
231 7 0.03
232 48 0.24
233 27 0.13
234 84 0.41
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.31
Consensus pattern (226 bp):
AATTTCATTATTTCCAAACCAAACTGCACCCAAATTCAACAAAAACATATTTAACATTAACTGAA
AAGCTTGACAATGTAGTTCATAAATCTATATGATTTACACCATATCTCTGGAAACATATGGTTCA
AGGAACAAGGATAGACATGCACATAAATTCTGCAATGTCTTGTCAATGGCATAAAAGATTCGGAT
ATGCAACAAAGATAAAAGTTGATTTTATTAA
Found at i:761544 original size:150 final size:150
Alignment explanation
Indices: 761273--761575 Score: 525
Period size: 150 Copynumber: 2.0 Consensus size: 150
761263 TAATGCCCTA
* *
761273 TCATTTGATTTCGCTTTCTTTTGCTCATTTGAAATCCTATGTATTCCAGTAAGTGATAATTTTCC
1 TCATTTGATTTCGCTTTCTTTTGCTCATTTGAAATCCTATGTATTACAGTAAGTGATAACTTTCC
* * *
761338 TGGGGAAGAACTAGATCTGTCTTGATTGCATTTTCCTTGTTTCTTTTATGGTAAAACTGTTGGCG
66 TAGGGAAGAACTAGATCTGTCTTGATTGCATATTCCTTGTTTCTTTTATGGTAAAACTGTTGGCA
761403 TCATCTTTTGTGTCCAGTTC
131 TCATCTTTTGTGTCCAGTTC
* *
761423 TCATTTGATTTCGCTTTCTTTTGCTCATTTGAAATCCTATGTATTATAGTAAGTGATGACTTTCC
1 TCATTTGATTTCGCTTTCTTTTGCTCATTTGAAATCCTATGTATTACAGTAAGTGATAACTTTCC
*
761488 TAGGGAAGCACTAGATCTGTCTTGATTGCATATTCCTTGTTTCTTTTATGGTAAAACTGTTGGCA
66 TAGGGAAGAACTAGATCTGTCTTGATTGCATATTCCTTGTTTCTTTTATGGTAAAACTGTTGGCA
*
761553 TTATCTTTTGTGTCCAGTTC
131 TCATCTTTTGTGTCCAGTTC
761573 TCA
1 TCA
761576 ACAACCATTT
Statistics
Matches: 144, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
150 144 1.00
ACGTcount: A:0.20, C:0.17, G:0.17, T:0.45
Consensus pattern (150 bp):
TCATTTGATTTCGCTTTCTTTTGCTCATTTGAAATCCTATGTATTACAGTAAGTGATAACTTTCC
TAGGGAAGAACTAGATCTGTCTTGATTGCATATTCCTTGTTTCTTTTATGGTAAAACTGTTGGCA
TCATCTTTTGTGTCCAGTTC
Found at i:764378 original size:50 final size:49
Alignment explanation
Indices: 764286--764433 Score: 206
Period size: 49 Copynumber: 3.0 Consensus size: 49
764276 TGCTTTACTA
764286 GCTATGATATTGAATTTAGTTTAAGCACATGATACCTAGTCAAGATAGG
1 GCTATGATATTGAATTTAGTTTAAGCACATGATACCTAGTCAAGATAGG
* * ** *
764335 GCTATGATATAGAATTTAGTTTTAAGAACATGATAAGTAGTCAATATAGG
1 GCTATGATATTGAATTTAG-TTTAAGCACATGATACCTAGTCAAGATAGG
* * * *
764385 GATGTGATATTGTATTTAGTTTAAGCACATGATACCTCGTCAAGATAGG
1 GCTATGATATTGAATTTAGTTTAAGCACATGATACCTAGTCAAGATAGG
764434 AATATTCAAC
Statistics
Matches: 84, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
49 43 0.51
50 41 0.49
ACGTcount: A:0.35, C:0.10, G:0.21, T:0.34
Consensus pattern (49 bp):
GCTATGATATTGAATTTAGTTTAAGCACATGATACCTAGTCAAGATAGG
Found at i:777479 original size:61 final size:60
Alignment explanation
Indices: 777342--777479 Score: 163
Period size: 61 Copynumber: 2.3 Consensus size: 60
777332 TAAAGTACAC
* * *
777342 AAAAGTTTTAAAATGGTCTTTCAATTATAGGAAATTATTTTATCGAGTTCCTCAACTATT
1 AAAAGTTATAAAATGGTCTTTCAACTATAGGAAATTATTTTATCGAGTCCCTCAACTATT
* * * **
777402 AAAATTTATAAAATGGTCCTTT-AACTATAGGAAATTATTTTTGTTGAG-CCCATTGACTATT
1 AAAAGTTATAAAATGGT-CTTTCAACTATAGGAAATTA-TTTTATCGAGTCCC-TCAACTATT
777463 AAAAGTTATAAAATGGT
1 AAAAGTTATAAAATGGT
777480 TATTCGACTA
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
60 31 0.47
61 35 0.53
ACGTcount: A:0.37, C:0.10, G:0.13, T:0.40
Consensus pattern (60 bp):
AAAAGTTATAAAATGGTCTTTCAACTATAGGAAATTATTTTATCGAGTCCCTCAACTATT
Found at i:779988 original size:2 final size:2
Alignment explanation
Indices: 779976--780011 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
779966 AACACAAATT
*
779976 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
780012 CGTACAAAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:781917 original size:2 final size:2
Alignment explanation
Indices: 781901--781966 Score: 118
Period size: 2 Copynumber: 34.0 Consensus size: 2
781891 CAGCTCATAC
781901 AT AT A- AT AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
781941 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
781967 GGATATGATC
Statistics
Matches: 62, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
1 2 0.03
2 60 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:783124 original size:226 final size:222
Alignment explanation
Indices: 782721--783162 Score: 735
Period size: 226 Copynumber: 2.0 Consensus size: 222
782711 GTAAATTATC
* * *
782721 TATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAATATATTTATTATTATCTTTAGTT
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAACATATTTATTATTATATTTAGTT
*
782786 AATATTGTTAAATTTAAAATCTAAATAATATTTATAAAATATCAAAACAATCAATAATTTTTGTG
66 AATATTGTTAAATTTAAAATCTAAATAATATTTATAAAATATCAAAACAATCAATAAATTTTGTG
*
782851 TAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAAC
131 TAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATAAAACACTATTAAAAAAATTGAAAC
782916 ATAAATTACATAACTTTCAAAAAGTATA
196 ATAAATTACATAACTTT-AAAAAGTATA
*
782944 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTTGAAAACATATTTATTATTATATTTGG
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTG-TG-AAACATATTTATTATTATATTTAG
*
783009 TTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATT
64 TTAATATTGTTAAATTTAAAATCTAAATAATA-TTTATAAAATATCAAAACAATC-AAT-AAATT
* *
783074 TTGTGT-AATTAAA-TATTAAATTAATATTGTAGGTGGAAAACATAAAACACTATTAAATAAATT
126 TTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATAAAACACTATTAAAAAAATT
783137 GAAACATAAATTACATAACTTTAAAA
191 GAAACATAAATTACATAACTTTAAAA
783163 GCAGTTTTAA
Statistics
Matches: 205, Mismatches: 9, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
223 36 0.18
224 2 0.01
225 56 0.27
226 92 0.45
227 9 0.04
228 10 0.05
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.39
Consensus pattern (222 bp):
TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAACATATTTATTATTATATTTAGTT
AATATTGTTAAATTTAAAATCTAAATAATATTTATAAAATATCAAAACAATCAATAAATTTTGTG
TAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATAAAACACTATTAAAAAAATTGAAAC
ATAAATTACATAACTTTAAAAAGTATA
Found at i:783251 original size:21 final size:20
Alignment explanation
Indices: 783227--783275 Score: 71
Period size: 21 Copynumber: 2.4 Consensus size: 20
783217 CGATATACCA
*
783227 GGTAAAAATTATGATAAAACC
1 GGTAAAAA-AATGATAAAACC
783248 GGTAAACAAAATGATAAAACC
1 GGTAAA-AAAATGATAAAACC
783269 GGTAAAA
1 GGTAAAA
783276 TTAAAAGTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 1 0.04
21 23 0.88
22 2 0.08
ACGTcount: A:0.55, C:0.10, G:0.16, T:0.18
Consensus pattern (20 bp):
GGTAAAAAAATGATAAAACC
Found at i:785729 original size:33 final size:33
Alignment explanation
Indices: 785687--785752 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
785677 AAATAGATGG
*
785687 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
***
785720 AGTGGTGAAAGAAGTTTCGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
785753 TATTAAGATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.29, C:0.02, G:0.45, T:0.24
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:787570 original size:19 final size:19
Alignment explanation
Indices: 787507--787569 Score: 110
Period size: 19 Copynumber: 3.4 Consensus size: 19
787497 AATGTCGAGT
*
787507 TAATTTTGTATAAGATTTA
1 TAATTTTGTATACGATTTA
787526 TAATTTTGTATACGATTTA
1 TAATTTTGTATACGATTTA
787545 TAATTTTGTATACGATTTA
1 TAATTTTGTATACGATTTA
787564 T-ATTTT
1 TAATTTT
787570 TTTATGTGAA
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
18 5 0.12
19 38 0.88
ACGTcount: A:0.32, C:0.03, G:0.10, T:0.56
Consensus pattern (19 bp):
TAATTTTGTATACGATTTA
Found at i:787988 original size:197 final size:198
Alignment explanation
Indices: 787649--788848 Score: 1997
Period size: 197 Copynumber: 6.1 Consensus size: 198
787639 TTAAGGGTCA
* *
787649 TGTCGATACTAATATAGTTTGTGTCGATATTTTTTT-CCAGAATGAATTAAAAACAAGGTGCATC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGCACC
787713 A-AAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
66 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
787776 AATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCT-AATA
131 AATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
787840 ATG
196 ATG
787843 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGC-CC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGCACC
787907 ATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAAGTATAAT
66 ATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAACCC-AAAAGTATAAT
787972 GT-ATATGTAATTTTTCAATCTAACCGGTACAATTATA-CGGTTTTATGAGAGAATAAGTCTAAA
129 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
788035 TAATG
194 TAATG
* *
788040 TGTCGACACT-A-ATAGTTTGTGTCGATATTTTTTT-TCAGAATGAATT---TACAAGGTGCATC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGCA-C
*
788099 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAA-CCAAAAGTATAATG
65 CATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
788163 TAATATGTAA-TTTTCAATCTAACCGGTACAATTATA-CGGTTTTTATGAGAGAATAAGTCTAAA
130 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGG-TTTTATGAGAGAATAAGTCTAAA
788226 TAATG
194 TAATG
788231 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAAC-AGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGCA-C
788295 CATAAAG-GTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
65 CATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
*
788359 GT-A-ATGTAATTTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAA
129 GTAATATGTAA-TTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAA
788422 ATAATG
193 ATAATG
788428 TGTCGACACT-A-ATAGTTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGCAC
1 TGTCGACACTAATATAG-TTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGCAC
*
788491 CATAAAGTGTCGATCCATATAAAAAAAGTGTCGATCCCCAAAATCATCGAACCCAAAAGTAT-AT
65 CATAAAGTGTCGATCCATATATAAAAAGTGTCGAT-CCCAAAATCATCGAACCCAAAAGTATAAT
788555 GTAATATGTAATTTTT-AATCTAACCCGGTACAATTATACCGG-TTTATGAGAGAATAAGTCTAA
129 GTAATATGTAATTTTTCAATCTAA-CCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAA
788618 ATAATG
193 ATAATG
* *
788624 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGAATC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGCA-C
*
788689 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
65 CATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
*
788754 TAA-ATGTAATTTTT-AATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAAT
130 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
788817 AATG
195 AATG
*
788821 TGTCGACACTAATA-ATTTTGTGTCGATA
1 TGTCGACACTAATATAGTTTGTGTCGATA
788849 CTAATTTAAA
Statistics
Matches: 956, Mismatches: 17, Indels: 64
0.92 0.02 0.06
Matches are distributed among these distances:
190 42 0.04
191 57 0.06
192 29 0.03
193 45 0.05
194 59 0.06
195 91 0.10
196 206 0.22
197 361 0.38
198 66 0.07
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (198 bp):
TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGCACC
ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
AATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
ATG
Found at i:788674 original size:393 final size:391
Alignment explanation
Indices: 787662--788848 Score: 2019
Period size: 393 Copynumber: 3.0 Consensus size: 391
787652 CGATACTAAT
*
787662 ATAGTTTGTGTCGATATTTTTTTCCAGAATGAATTAAAAACAAGGTGCATCA-AAAGTGTCGATC
1 ATAGTTTGTGTCGATATTTTTTTCCAGAATGAATTAAAAACAAGGTGCACCATAAAGTGTCGATC
*
787726 CATAT-ATAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTT
66 CATATAAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTT
787790 CAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCT-AATAATGTGTCGACACTA
131 -AATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATAATGTGTCGACACTA
787854 ATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTG-CCCATAAAGTGTCG
195 ATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGACCCATAAAGTGTCG
787918 ATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAAGTATAATGTATATGTAAT
260 ATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCC-AAAAGTATAATGTA-ATGTAAT
*
787983 TTTTCAATCTAACCGGTACAATTATA-CGGTTTTATGAGAGAATAAGTCTAAATAATGTGTCGAC
323 TTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATAATGTGTCGAC
788047 ACTA
388 ACTA
* * *
788051 ATAGTTTGTGTCGATATTTTTTTTCAGAATGAATT---TACAAGGTGCATCAATAAAGTGTCGAT
1 ATAGTTTGTGTCGATATTTTTTTCCAGAATGAATTAAAAACAAGGTGCA-CCATAAAGTGTCGAT
*
788113 CCATATATAAAAAGTGTCGATCCCAAAATCATCGAA-CCAAAAGTATAATGTAATATGTAATTTT
65 CCATATAAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTT
*
788177 CAATCTAACCGGTACAATTATA-CGGTTTTTATGAGAGAATAAGTCTAAATAATGTGTCGACACT
130 TAATCTAACCGGTACAATTATACCGG-TTTTATGAGAGAATAAGTCTAAATAATGTGTCGACACT
788241 AATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAAC-AGGTGCACCCATAAAG-GT
194 AATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTG-ACCCATAAAGTGT
788304 CGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATGTAAT
258 CGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATGTAA-
788369 TTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATAATGTGTCGA
322 TTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATAATGTGTCGA
788434 CACTA
387 CACTA
788439 ATAGTTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGCACCATAAAGTGTCGA
1 ATAG-TTTGTGTCGATATTTTTTT-CCAGAATGAATTAAAAACAAGGTGCACCATAAAGTGTCGA
788504 TCCATATAAAAAAAGTGTCGATCCCCAAAATCATCGAACCCAAAAGTAT-ATGTAATATGTAATT
64 TCCATATAAAAAAAGTGTCGAT-CCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATT
788568 TTTAATCTAACCCGGTACAATTATACCGG-TTTATGAGAGAATAAGTCTAAATAATGTGTCGACA
128 TTTAATCTAA-CCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATAATGTGTCGACA
* * *
788632 CTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGAATCAATAAAGT
192 CTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTG-ACCCATAAAGT
788697 GTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAAATGT
256 GTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT-AATGT
*
788761 AA-TTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTC
320 AATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATAATGTGTC
788825 GACACTA
385 GACACTA
*
788832 ATAATTTTGTGTCGATA
1 AT-AGTTTGTGTCGATA
788849 CTAATTTAAA
Statistics
Matches: 757, Mismatches: 19, Indels: 40
0.93 0.02 0.05
Matches are distributed among these distances:
386 19 0.03
387 87 0.11
388 199 0.26
389 89 0.12
390 11 0.01
392 34 0.04
393 212 0.28
394 82 0.11
395 24 0.03
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (391 bp):
ATAGTTTGTGTCGATATTTTTTTCCAGAATGAATTAAAAACAAGGTGCACCATAAAGTGTCGATC
CATATAAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTT
AATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATAATGTGTCGACACTAA
TATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGACCCATAAAGTGTCGA
TCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATGTAATTTT
TTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATAATGTGTCGACACT
A
Found at i:790289 original size:18 final size:18
Alignment explanation
Indices: 790266--790327 Score: 88
Period size: 18 Copynumber: 3.4 Consensus size: 18
790256 ATCGGTCGCA
* * *
790266 GAAGATGAAGCTGACGAT
1 GAAGATGACGATGATGAT
790284 GAAGATGACGATGATGAT
1 GAAGATGACGATGATGAT
*
790302 GATGATGACGATGATGAT
1 GAAGATGACGATGATGAT
790320 GAAGATGA
1 GAAGATGA
790328 TGATCCAAAC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 39 1.00
ACGTcount: A:0.39, C:0.06, G:0.34, T:0.21
Consensus pattern (18 bp):
GAAGATGACGATGATGAT
Found at i:790290 original size:6 final size:6
Alignment explanation
Indices: 790266--790327 Score: 61
Period size: 6 Copynumber: 10.3 Consensus size: 6
790256 ATCGGTCGCA
* * * * * *
790266 GAAGAT GAAGCT GACGAT GAAGAT GACGAT GATGAT GATGAT GACGAT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
*
790314 GATGAT GAAGAT GA
1 GAAGAT GAAGAT GA
790328 TGATCCAAAC
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 47 1.00
ACGTcount: A:0.39, C:0.06, G:0.34, T:0.21
Consensus pattern (6 bp):
GAAGAT
Found at i:790301 original size:3 final size:3
Alignment explanation
Indices: 790281--790331 Score: 66
Period size: 3 Copynumber: 17.0 Consensus size: 3
790271 TGAAGCTGAC
* * * *
790281 GAT GAA GAT GAC GAT GAT GAT GAT GAT GAC GAT GAT GAT GAA GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
790329 GAT
1 GAT
790332 CCAAACAAGT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.37, C:0.04, G:0.33, T:0.25
Consensus pattern (3 bp):
GAT
Found at i:790328 original size:12 final size:12
Alignment explanation
Indices: 790269--790331 Score: 81
Period size: 12 Copynumber: 5.2 Consensus size: 12
790259 GGTCGCAGAA
* *
790269 GATGAAGCTGAC
1 GATGAAGATGAT
*
790281 GATGAAGATGAC
1 GATGAAGATGAT
*
790293 GATGATGATGAT
1 GATGAAGATGAT
*
790305 GATGACGATGAT
1 GATGAAGATGAT
790317 GATGAAGATGAT
1 GATGAAGATGAT
790329 GAT
1 GAT
790332 CCAAACAAGT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 46 1.00
ACGTcount: A:0.37, C:0.06, G:0.33, T:0.24
Consensus pattern (12 bp):
GATGAAGATGAT
Found at i:790465 original size:56 final size:57
Alignment explanation
Indices: 790401--790515 Score: 223
Period size: 56 Copynumber: 2.0 Consensus size: 57
790391 AATGGTGTCC
790401 TTGCCTACATCCCAAGACTGCCGGCAGGTTTTAATTCTATTC-TTTGTATCCATTAT
1 TTGCCTACATCCCAAGACTGCCGGCAGGTTTTAATTCTATTCTTTTGTATCCATTAT
790457 TTGCCTACATCCCAAGACTGCCGGCAGGTTTTAATTCTATTCTTTTGTATCCATTAT
1 TTGCCTACATCCCAAGACTGCCGGCAGGTTTTAATTCTATTCTTTTGTATCCATTAT
790514 TT
1 TT
790516 TAACATATAA
Statistics
Matches: 58, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
56 42 0.72
57 16 0.28
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (57 bp):
TTGCCTACATCCCAAGACTGCCGGCAGGTTTTAATTCTATTCTTTTGTATCCATTAT
Found at i:792463 original size:179 final size:184
Alignment explanation
Indices: 791740--792757 Score: 1823
Period size: 179 Copynumber: 5.7 Consensus size: 184
791730 CTTTCAACAT
*
791740 ATTATAAT-AAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
791804 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
791869 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
791923 ATTATAATGT-ATAGATAATTTTGT-ATATAACC-GTATAAAATATACCGGTCTTATGCGCGAAT
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTAT-AAATATACCGGTCTTATGCGCGAAT
791985 -GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAA
65 AGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAA
*
792049 AAATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
130 AAATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
792104 A-T-TAATGTAATAGATAA-TTTGTAATATAACCGGTATAAATATACCGGTCTATATGCGCGAAT
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCT-TATGCGCGAAT
792166 AGGTCTACAACC--TATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAA
65 AGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAA
792229 AAATGTGTCGATACGATTTAAAAAAGTGTCGACA-TTTACACATCGGAACCCATA
130 AAATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
792283 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
792348 GGTCTACAACCTATATCGACAC-TTTTAATATTGTGTCGGTACTTTATGT-CATATTGGAAG-AA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
792410 AATGTGTCGATAC-ATTTAAAAAAGTGTCGACATTTTACACATCGGAA-CCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
792462 ATTATAATGTAATAGATAATTTTGTAATATAA-CGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
792526 GGTCTACAACC--TATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
792589 AATGTGTCGATAC-ATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
*
792642 ATTATAATGTAATAGATAA-TTTGTAATATAACC-GTATAAATATACCGGT-TTATGAGCG-ATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
792703 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATA
792758 CCATTTAAAA
Statistics
Matches: 811, Mismatches: 4, Indels: 44
0.94 0.00 0.05
Matches are distributed among these distances:
176 9 0.01
177 41 0.05
178 62 0.08
179 207 0.26
180 170 0.21
181 187 0.23
182 104 0.13
183 31 0.04
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (184 bp):
ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
Found at i:792623 original size:18 final size:19
Alignment explanation
Indices: 792586--792623 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
792576 ATATTGGAAG
*
792586 AAAAATGTGTCGATACATTT
1 AAAAAAGTGTCGA-ACATTT
792606 AAAAAAGTGTCG-ACATTT
1 AAAAAAGTGTCGAACATTT
792624 TACACATCGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
20 11 0.65
ACGTcount: A:0.42, C:0.11, G:0.16, T:0.32
Consensus pattern (19 bp):
AAAAAAGTGTCGAACATTT
Found at i:795353 original size:21 final size:21
Alignment explanation
Indices: 795309--795360 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
795299 GTAGCCCTTA
*
795309 TATAATGTAATAGGTATCGTT
1 TATAATGTAATAGGTATCGGT
795330 TATAATGTAATAGGTAAT-GGT
1 TATAATGTAATAGGT-ATCGGT
*
795351 TATATTGTAA
1 TATAATGTAA
795361 AGTGTCTATC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 26 0.93
22 2 0.07
ACGTcount: A:0.37, C:0.02, G:0.19, T:0.42
Consensus pattern (21 bp):
TATAATGTAATAGGTATCGGT
Found at i:796030 original size:416 final size:415
Alignment explanation
Indices: 795192--796034 Score: 1447
Period size: 410 Copynumber: 2.0 Consensus size: 415
795182 TCGCAGTACA
795192 TGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATAAAAA
1 TGTT-AAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATAAAAA
795257 GTATGGACACTTTCAATATATAGGTAAACATATGATGTATAGGTAGCCCTTATATAATGTAATAG
65 GTATGGA-A---TCAATATATAGGTAAACATATGATGTATAGGTAGCCCTTATATAATGTAATAG
*
795322 GTATCGTTTATAATGTAATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTATAAAAGTGTC
126 GTATCGTTAATAATGTAATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTATAAAAGTGTC
795387 CATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGGTTTTAAGATATTAA
191 CATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGGTTTTAAGATATTAA
795452 TTTAGTAATTATAGGCGTCTAATGATTTTTTTACGTTACGGTATATTATTATTAAATTAAAATTC
256 TTTAGTAATTATAGGCGTCTAATGATTTTTTTACGTTACGGTATATTATTATTAAATTAAAATTC
795517 TAAATAATATTTTATAAAATATCAAAAACAATCAAATAATTTTTTTGTGCAAATGAATTATTAAA
321 TAAATAATATTTTATAAAATATCAAAAACAATCAAATAATTTTTTTGTGCAAATGAATTATTAAA
795582 TCAATATTGTAGGTGGAAAACATGAAACAC
386 TCAATATTGTAGGTGGAAAACATGAAACAC
795612 TGTTAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATAAAAAG
1 TGTTAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATAAAAAG
795677 TATGG-A-C-A-A-ATAGGTAAACATATGATGTAATAGGTAGCCC-T-TATAATGTAATAGGTAT
66 TATGGAATCAATATATAGGTAAACATATGATGT-ATAGGTAGCCCTTATATAATGTAATAGGTAT
795735 CGATATAAT-ATGT-ATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCC
130 CG-T-TAATAATGTAATAGGTAATGGTTATATTGTAAAGTGTCTATCC-TTTTATAAAAGTGTCC
795798 ATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAA
192 ATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTG-GTTTTAAGATATTAA
795863 TTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAA
256 TTTAGTAATTATAGGCGTCTAATGA--T-TTTTTTACGTTACGG--TATATTATTATTAAATT-A
795928 AAATTCTAAATAATATTTTATAAAATATC-AAAACAATCAAATAA-TTTTTTGTGCAAATGAAAT
315 AAATTCTAAATAATATTTTATAAAATATCAAAAACAATCAAATAATTTTTTTGTGCAAATG-AAT
795991 TATTAAATCAATATTGTAGGTGGAAAACATGAAACAC
379 TATTAAATCAATATTGTAGGTGGAAAACATGAAACAC
796028 TGTTAAA
1 TGTTAAA
796035 GTATCGATCC
Statistics
Matches: 410, Mismatches: 1, Indels: 28
0.93 0.00 0.06
Matches are distributed among these distances:
409 52 0.13
410 90 0.22
411 55 0.13
412 1 0.00
413 2 0.00
414 15 0.04
415 15 0.04
416 79 0.19
417 31 0.08
419 66 0.16
420 4 0.01
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.39
Consensus pattern (415 bp):
TGTTAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATAAAAAG
TATGGAATCAATATATAGGTAAACATATGATGTATAGGTAGCCCTTATATAATGTAATAGGTATC
GTTAATAATGTAATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTATAAAAGTGTCCATAC
TTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGGTTTTAAGATATTAATTTAG
TAATTATAGGCGTCTAATGATTTTTTTACGTTACGGTATATTATTATTAAATTAAAATTCTAAAT
AATATTTTATAAAATATCAAAAACAATCAAATAATTTTTTTGTGCAAATGAATTATTAAATCAAT
ATTGTAGGTGGAAAACATGAAACAC
Found at i:799705 original size:21 final size:21
Alignment explanation
Indices: 799679--799721 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
799669 TTGTAGGATA
799679 GCTGAGTTTTGGAATAACGGT
1 GCTGAGTTTTGGAATAACGGT
799700 GCTGAGTTTTGGAATAACGGT
1 GCTGAGTTTTGGAATAACGGT
799721 G
1 G
799722 GCATGAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.09, G:0.35, T:0.33
Consensus pattern (21 bp):
GCTGAGTTTTGGAATAACGGT
Found at i:806750 original size:160 final size:161
Alignment explanation
Indices: 806581--806901 Score: 635
Period size: 160 Copynumber: 2.0 Consensus size: 161
806571 AGGTCAAATT
806581 TAATAATTTAGGTACTAAAATTGTTATGTTTTTAATAGTATGAAATAAAAATTAAACTTTAGATG
1 TAATAATTTAGGTACTAAAATTGTTATGTTTTTAATAGTATGAAATAAAAATTAAACTTTAGATG
806646 TGATTTAAAAAAAAATAAAAGTTTAGATACTTAAGTAAATTAAAATTAATAGTTTAGTTATTAAA
66 TGATTTAAAAAAAAATAAAAGTTTAGATACTTAAGTAAATTAAAATTAATAGTTTAGTTATTAAA
806711 TACATAGTTCACACT-AAATATATTATTAAA
131 TACATAGTTCACACTAAAATATATTATTAAA
806741 TAATAATTTAGGTACTAAAATTGTTATGTTTTTAATAGTATGAAATAAAAATTAAACTTTAGATG
1 TAATAATTTAGGTACTAAAATTGTTATGTTTTTAATAGTATGAAATAAAAATTAAACTTTAGATG
806806 TGATTTAAAAAAAAATAAAAGTTTAGATACTTAAGTAAATTAAAATTAATAGTTTAGTTATTAAA
66 TGATTTAAAAAAAAATAAAAGTTTAGATACTTAAGTAAATTAAAATTAATAGTTTAGTTATTAAA
806871 TACATAGTTCACACTAAAATATATTATTAAA
131 TACATAGTTCACACTAAAATATATTATTAAA
806902 AGAAAAAAGT
Statistics
Matches: 160, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
160 145 0.91
161 15 0.09
ACGTcount: A:0.48, C:0.04, G:0.09, T:0.39
Consensus pattern (161 bp):
TAATAATTTAGGTACTAAAATTGTTATGTTTTTAATAGTATGAAATAAAAATTAAACTTTAGATG
TGATTTAAAAAAAAATAAAAGTTTAGATACTTAAGTAAATTAAAATTAATAGTTTAGTTATTAAA
TACATAGTTCACACTAAAATATATTATTAAA
Found at i:816184 original size:29 final size:29
Alignment explanation
Indices: 816152--816241 Score: 107
Period size: 29 Copynumber: 3.2 Consensus size: 29
816142 GAAGGTAAAA
*
816152 TATTTTTATAGTATATTCTAATTGTTTAT
1 TATTTTTATAGTATATTATAATTGTTTAT
* *
816181 TA-TTTTATTGT-T-TTATTAAAT-TTTAT
1 TATTTTTATAGTATATTA-TAATTGTTTAT
*
816207 TATTTTTATATTATATTATAATTGTTTAT
1 TATTTTTATAGTATATTATAATTGTTTAT
816236 TATTTT
1 TATTTT
816242 ATTATTTTAT
Statistics
Matches: 50, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
26 9 0.18
27 12 0.24
28 13 0.26
29 16 0.32
ACGTcount: A:0.28, C:0.01, G:0.04, T:0.67
Consensus pattern (29 bp):
TATTTTTATAGTATATTATAATTGTTTAT
Found at i:816205 original size:18 final size:18
Alignment explanation
Indices: 816182--816271 Score: 78
Period size: 18 Copynumber: 4.9 Consensus size: 18
816172 ATTGTTTATT
816182 ATTTTATTGTTTTATTAA
1 ATTTTATTGTTTTATTAA
* *
816200 ATTTTATTATTTTTATATTAT
1 ATTTTA-T-TGTTT-TATTAA
*
816221 ATTATAATTG-TTTATT--
1 ATT-TTATTGTTTTATTAA
*
816237 ATTTTATTATTTTATTAA
1 ATTTTATTGTTTTATTAA
*
816255 ATTTTATTGTATTATTA
1 ATTTTATTGTTTTATTA
816272 TTTATTATTA
Statistics
Matches: 57, Mismatches: 8, Indels: 14
0.72 0.10 0.18
Matches are distributed among these distances:
15 4 0.07
16 9 0.16
18 25 0.44
19 3 0.05
20 5 0.09
21 9 0.16
22 2 0.04
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (18 bp):
ATTTTATTGTTTTATTAA
Found at i:816205 original size:26 final size:27
Alignment explanation
Indices: 816176--816292 Score: 118
Period size: 26 Copynumber: 4.4 Consensus size: 27
816166 ATTCTAATTG
*
816176 TTTATTATTTTATTGTTTTATTAAAT-
1 TTTATTATTTTATTATTTTATTAAATA
* *
816202 TTTATTATTTT-TATATTATATTATAATTG
1 TTTATTATTTTAT-TATTTTATTA-AA-TA
816231 TTTATTATTTTATTATTTTATTAAAT-
1 TTTATTATTTTATTATTTTATTAAATA
* * *
816257 TTTATTGTATTATTA-TTTATT-ATTA
1 TTTATTATTTTATTATTTTATTAAATA
816282 TTTATTATTTT
1 TTTATTATTTT
816293 TTACAGTTAT
Statistics
Matches: 77, Mismatches: 8, Indels: 13
0.79 0.08 0.13
Matches are distributed among these distances:
24 2 0.03
25 16 0.21
26 32 0.42
27 3 0.04
28 3 0.04
29 20 0.26
30 1 0.01
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (27 bp):
TTTATTATTTTATTATTTTATTAAATA
Found at i:816222 original size:55 final size:55
Alignment explanation
Indices: 816152--816262 Score: 195
Period size: 55 Copynumber: 2.0 Consensus size: 55
816142 GAAGGTAAAA
* *
816152 TATTTTTATAGTATATTCTAATTGTTTATTATTTTATTGTTTTATTAAATTTTAT
1 TATTTTTATAGTATATTATAATTGTTTATTATTTTATTATTTTATTAAATTTTAT
*
816207 TATTTTTATATTATATTATAATTGTTTATTATTTTATTATTTTATTAAATTTTAT
1 TATTTTTATAGTATATTATAATTGTTTATTATTTTATTATTTTATTAAATTTTAT
816262 T
1 T
816263 GTATTATTAT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.29, C:0.01, G:0.04, T:0.67
Consensus pattern (55 bp):
TATTTTTATAGTATATTATAATTGTTTATTATTTTATTATTTTATTAAATTTTAT
Found at i:816246 original size:3 final size:3
Alignment explanation
Indices: 816177--816290 Score: 61
Period size: 3 Copynumber: 40.7 Consensus size: 3
816167 TTCTAATTGT
* * *
816177 TTA TTA TT- TTA TTG TT- TTA TTA -AA TT- TTA TTA TTT TTA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
816220 -TA TTA TAA TTGT TTA TTA TT- TTA TTA TT- TTA TTA -AA TT- TTA
1 TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
816261 TT- GTA TTA TTA TTTA TTA TTA TTTA TTA TT
1 TTA TTA TTA TTA -TTA TTA TTA -TTA TTA TT
816291 TTTTACAGTT
Statistics
Matches: 84, Mismatches: 13, Indels: 28
0.67 0.10 0.22
Matches are distributed among these distances:
2 19 0.23
3 57 0.68
4 8 0.10
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:816277 original size:10 final size:10
Alignment explanation
Indices: 816202--816295 Score: 79
Period size: 10 Copynumber: 9.4 Consensus size: 10
816192 TTTATTAAAT
816202 TTTATTATT-
1 TTTATTATTA
816211 TTTA-TATTA
1 TTTATTATTA
* *
816220 TATTATAATTG
1 T-TTATTATTA
*
816231 TTTATTATTT
1 TTTATTATTA
816241 TATTATT-TTA
1 T-TTATTATTA
*
816251 TTAAATT-TTA
1 TT-TATTATTA
816261 TTGTATTATTA
1 TT-TATTATTA
816272 TTTATTATTA
1 TTTATTATTA
*
816282 TTTATTATTT
1 TTTATTATTA
816292 TTTA
1 TTTA
816296 CAGTTATAAA
Statistics
Matches: 70, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
8 4 0.06
9 6 0.09
10 46 0.66
11 14 0.20
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (10 bp):
TTTATTATTA
Found at i:820771 original size:35 final size:35
Alignment explanation
Indices: 820659--820790 Score: 192
Period size: 36 Copynumber: 3.7 Consensus size: 35
820649 AGAAGAAAAA
820659 AAGGAAGCATCAGCACTTTCGATTCAAAGTGAACGG
1 AAGGAAGCATCAGCACTTTCGATTC-AAGTGAACGG
* * *
820695 AAGGAAGCATCGGCACTTTCGATTCAAGAAGAACGA
1 AAGGAAGCATCAGCACTTTCGATTCAAG-TGAACGG
* *
820731 AAGGAAGCACCGGCACTTTCGATTCAAGTGAACGG
1 AAGGAAGCATCAGCACTTTCGATTCAAGTGAACGG
*
820766 AAGGAAGCGTCAGCACTTTCGATTC
1 AAGGAAGCATCAGCACTTTCGATTC
820791 GGTTGTTCAT
Statistics
Matches: 86, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
35 30 0.35
36 56 0.65
ACGTcount: A:0.34, C:0.21, G:0.26, T:0.19
Consensus pattern (35 bp):
AAGGAAGCATCAGCACTTTCGATTCAAGTGAACGG
Found at i:854177 original size:21 final size:21
Alignment explanation
Indices: 854135--854177 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
854125 TTTCTGGGTT
* * *
854135 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
854156 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
854177 A
1 A
854178 TGAAATGAAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:854243 original size:67 final size:69
Alignment explanation
Indices: 854157--854309 Score: 222
Period size: 68 Copynumber: 2.2 Consensus size: 69
854147 ACCCATTCAA
* *
854157 GGGGAACCGATACCCCCTCAAT-G-AAATGAATTTCCAGAATGCTAGAGGGGAATCGGTACCCCC
1 GGGGAACCGATACCCCCTC-ATCGTAAATGAAATTCCAGAATGCTAGAGGGGAATCGATACCCCC
854220 A-GGG
65 AGGGG
* * *
854224 GGGGAACCGATACCCCCTCATCGTATATGAAATTCCAGATTGCTTGAGGGGAATCGATACCCCCA
1 GGGGAACCGATACCCCCTCATCGTAAATGAAATTCCAGAATGCTAGAGGGGAATCGATACCCCCA
854289 GGGG
66 GGGG
*
854293 GGGGAACCGATTCCCCC
1 GGGGAACCGATACCCCC
854310 ATGAGAAAAA
Statistics
Matches: 77, Mismatches: 6, Indels: 4
0.89 0.07 0.05
Matches are distributed among these distances:
66 2 0.03
67 20 0.26
68 36 0.47
69 19 0.25
ACGTcount: A:0.27, C:0.27, G:0.28, T:0.18
Consensus pattern (69 bp):
GGGGAACCGATACCCCCTCATCGTAAATGAAATTCCAGAATGCTAGAGGGGAATCGATACCCCCA
GGGG
Found at i:854684 original size:30 final size:30
Alignment explanation
Indices: 854650--854708 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
854640 GTTATATGAG
*
854650 CTATGTGATAAAGGTATGAAAATGATATGT
1 CTATGTGATAAAGGTATGAAAATAATATGT
*
854680 CTATGTGATAAAGGTATGGAAATAATATG
1 CTATGTGATAAAGGTATGAAAATAATATG
854709 ACTACGCGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.32
Consensus pattern (30 bp):
CTATGTGATAAAGGTATGAAAATAATATGT
Found at i:854982 original size:23 final size:22
Alignment explanation
Indices: 854922--854989 Score: 127
Period size: 22 Copynumber: 3.0 Consensus size: 22
854912 TTATGGACAT
854922 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
854944 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
854966 AATTCTACGGGGCACTTCGGTGC
1 AATTCTAC-GGGCACTTCGGTGC
854989 A
1 A
854990 TTTATACGAG
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
22 30 0.67
23 15 0.33
ACGTcount: A:0.19, C:0.26, G:0.28, T:0.26
Consensus pattern (22 bp):
AATTCTACGGGCACTTCGGTGC
Found at i:861075 original size:21 final size:21
Alignment explanation
Indices: 861033--861075 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
861023 TTTCTGGGTT
* * *
861033 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
861054 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
861075 A
1 A
861076 TGAAATGAAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:861141 original size:68 final size:68
Alignment explanation
Indices: 861055--861207 Score: 220
Period size: 68 Copynumber: 2.2 Consensus size: 68
861045 ACCCATTCAA
* *
861055 GGGGAACCGATACCCCCTCAAT-G-AAATGAATTTCCAGAATGCTAGAGGGGAATCGGTACCCCC
1 GGGGAACCGATACCCCCTC-ATCGTAAATGAAATTCCAGAATGCTAGAGGGGAATCGATACCCCC
861118 AGGGG
65 A-GGG
* * *
861123 GGGGAACCGATACCCCCTCATCGTATATGAAATTCCAGATTGCTTGAGGGGAATCGATACCCCCA
1 GGGGAACCGATACCCCCTCATCGTAAATGAAATTCCAGAATGCTAGAGGGGAATCGATACCCCCA
861188 GGG
66 GGG
*
861191 GGGGAACCGATTCCCCC
1 GGGGAACCGATACCCCC
861208 ATGAGAAAAA
Statistics
Matches: 77, Mismatches: 6, Indels: 4
0.89 0.07 0.05
Matches are distributed among these distances:
67 2 0.03
68 39 0.51
69 36 0.47
ACGTcount: A:0.27, C:0.27, G:0.28, T:0.18
Consensus pattern (68 bp):
GGGGAACCGATACCCCCTCATCGTAAATGAAATTCCAGAATGCTAGAGGGGAATCGATACCCCCA
GGG
Found at i:861582 original size:30 final size:30
Alignment explanation
Indices: 861548--861606 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
861538 GTTATATGAG
*
861548 CTATGTGATAAAGGTATGAAAATGATATGT
1 CTATGTGATAAAGGTATGAAAATAATATGT
*
861578 CTATGTGATAAAGGTATGGAAATAATATG
1 CTATGTGATAAAGGTATGAAAATAATATG
861607 ACTACGCGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.32
Consensus pattern (30 bp):
CTATGTGATAAAGGTATGAAAATAATATGT
Found at i:861880 original size:23 final size:22
Alignment explanation
Indices: 861820--861887 Score: 127
Period size: 22 Copynumber: 3.0 Consensus size: 22
861810 TTATGGACAT
861820 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
861842 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
861864 AATTCTACGGGGCACTTCGGTGC
1 AATTCTAC-GGGCACTTCGGTGC
861887 A
1 A
861888 TTTATACGAG
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
22 30 0.67
23 15 0.33
ACGTcount: A:0.19, C:0.26, G:0.28, T:0.26
Consensus pattern (22 bp):
AATTCTACGGGCACTTCGGTGC
Found at i:864125 original size:2 final size:2
Alignment explanation
Indices: 864118--864152 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
864108 TTCTAATCCC
864118 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 T
864153 GCATATCAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Done.