Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008814.1 Hibiscus syriacus cultivar Beakdansim tig00111976_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: 1021170
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 5
Found at i:788646 original size:22 final size:22
Alignment explanation
Indices: 788591--788647 Score: 87
Period size: 22 Copynumber: 2.6 Consensus size: 22
788581 AATAAAGCCT
* * *
788591 TCATATTTGAAAAGGGAATCTA
1 TCATCTTTGAAGAGAGAATCTA
788613 TCATCTTTGAAGAGAGAATCTA
1 TCATCTTTGAAGAGAGAATCTA
788635 TCATCTTTGAAGA
1 TCATCTTTGAAGA
788648 ATGTAGATGT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (22 bp):
TCATCTTTGAAGAGAGAATCTA
Found at i:793237 original size:11 final size:11
Alignment explanation
Indices: 793214--793246 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
793204 TTAAAAAAAA
793214 TTCTTCTTCTTT
1 TTCTTCTT-TTT
793226 TT-TTCTTTTT
1 TTCTTCTTTTT
793236 TTCTTCTTTTT
1 TTCTTCTTTTT
793247 AATCTCTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 5 0.25
11 13 0.65
12 2 0.10
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (11 bp):
TTCTTCTTTTT
Found at i:793241 original size:19 final size:21
Alignment explanation
Indices: 793217--793260 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 21
793207 AAAAAAATTC
*
793217 TTCTTCTTTTT-TTCT-TTTT
1 TTCTTCTTTTTAATCTCTTTT
793236 TTCTTCTTTTTAATCTCTTTT
1 TTCTTCTTTTTAATCTCTTTT
793257 TTCT
1 TTCT
793261 GATGAATGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 11 0.50
20 3 0.14
21 8 0.36
ACGTcount: A:0.05, C:0.18, G:0.00, T:0.77
Consensus pattern (21 bp):
TTCTTCTTTTTAATCTCTTTT
Found at i:796479 original size:7 final size:7
Alignment explanation
Indices: 796469--796510 Score: 52
Period size: 6 Copynumber: 6.1 Consensus size: 7
796459 AGCAAACAAC
796469 AAATGCA
1 AAATGCA
796476 AAATG-A
1 AAATGCA
796482 AAATGCA
1 AAATGCA
*
796489 AAGATGTA
1 AA-ATGCA
796497 AAATGC-
1 AAATGCA
796503 AAATGCA
1 AAATGCA
796510 A
1 A
796511 TGTATGAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
6 12 0.40
7 12 0.40
8 6 0.20
ACGTcount: A:0.57, C:0.10, G:0.17, T:0.17
Consensus pattern (7 bp):
AAATGCA
Found at i:802807 original size:28 final size:28
Alignment explanation
Indices: 802774--802836 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
802764 TTGTTTGCAA
802774 TTTTTTTAAATTTTGGTT-TTTTTTGTTT
1 TTTTTTTAAATTTT-GTTGTTTTTTGTTT
*** *
802802 TTTTTTTGCCTTTTTTTGTTTTTTGTTT
1 TTTTTTTAAATTTTGTTGTTTTTTGTTT
802830 TTTTTTT
1 TTTTTTT
802837 TTTGAAAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 2 0.07
28 28 0.93
ACGTcount: A:0.05, C:0.03, G:0.10, T:0.83
Consensus pattern (28 bp):
TTTTTTTAAATTTTGTTGTTTTTTGTTT
Found at i:802836 original size:21 final size:21
Alignment explanation
Indices: 802784--802840 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
802774 TTTTTTTAAA
*
802784 TTTTGGTTTTTTTTGTTTTTT
1 TTTTGCTTTTTTTTGTTTTTT
*
802805 TTTTGCCTTTTTTTGTTTTTT
1 TTTTGCTTTTTTTTGTTTTTT
*
802826 GTTTT-TTTTTTTTTG
1 -TTTTGCTTTTTTTTG
802841 AAAAAAAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 27 0.87
22 4 0.13
ACGTcount: A:0.00, C:0.04, G:0.12, T:0.84
Consensus pattern (21 bp):
TTTTGCTTTTTTTTGTTTTTT
Found at i:804533 original size:27 final size:27
Alignment explanation
Indices: 804499--804630 Score: 113
Period size: 24 Copynumber: 5.0 Consensus size: 27
804489 AAAACATGTT
*
804499 TAAAATAATATATATATATTTTAAAAA
1 TAAAATAATATATATATAATTTAAAAA
804526 TAAAATAATATATAT-TAA--TAAAAA
1 TAAAATAATATATATATAATTTAAAAA
804550 TAAACA-AATAT-TAT-TAATTTATAAAA
1 TAAA-ATAATATATATATAATTTA-AAAA
804576 TTAATCAAATAATATATAT-TAA--TAAAAA
1 -T-A--AAATAATATATATATAATTTAAAAA
804604 TAAAATAATA-ATAATAATAATTTAAAA
1 TAAAATAATATAT-AT-ATAATTTAAAA
804631 TATTAAACAT
Statistics
Matches: 89, Mismatches: 1, Indels: 29
0.75 0.01 0.24
Matches are distributed among these distances:
23 8 0.09
24 25 0.28
25 3 0.03
26 10 0.11
27 17 0.19
28 10 0.11
29 3 0.03
30 7 0.08
31 6 0.07
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (27 bp):
TAAAATAATATATATATAATTTAAAAA
Found at i:804615 original size:3 final size:3
Alignment explanation
Indices: 804583--804624 Score: 50
Period size: 3 Copynumber: 14.0 Consensus size: 3
804573 AAATTAATCA
* *
804583 AAT AAT ATAT ATT AAT AAA AAT AA- AAT AAT AAT AAT AAT AAT
1 AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
804625 TTAAAATATT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
2 2 0.06
3 28 0.85
4 3 0.09
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:804657 original size:24 final size:24
Alignment explanation
Indices: 804616--804668 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
804606 AAATAATAAT
*
804616 AATAATAATTTAAAATA-TTAAAC
1 AATAATAATTAAAAATATTTAAAC
804639 ATATAA-AATTAAAATATATTTAAAC
1 A-ATAATAATTAAAA-ATATTTAAAC
804664 AATAA
1 AATAA
804669 CTAAAACAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
23 8 0.31
24 11 0.42
25 7 0.27
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (24 bp):
AATAATAATTAAAAATATTTAAAC
Found at i:804683 original size:37 final size:36
Alignment explanation
Indices: 804642--804711 Score: 88
Period size: 37 Copynumber: 1.9 Consensus size: 36
804632 ATTAAACATA
* *
804642 TAAAATT-AAAATATATTTAAACAATAACTAAAACAAT
1 TAAAATTCAAAATATA-GTAAAAAATAA-TAAAACAAT
*
804679 TAAAATTCAAACTATAGTAAAAAATAATAAAAC
1 TAAAATTCAAAATATAGTAAAAAATAATAAAAC
804712 TTGTATCTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
36 6 0.21
37 16 0.55
38 7 0.24
ACGTcount: A:0.63, C:0.09, G:0.01, T:0.27
Consensus pattern (36 bp):
TAAAATTCAAAATATAGTAAAAAATAATAAAACAAT
Found at i:805936 original size:3 final size:3
Alignment explanation
Indices: 805928--805989 Score: 65
Period size: 3 Copynumber: 21.0 Consensus size: 3
805918 TAAAATTATT
* * *
805928 TAA TAA TAA TAA TAA TAA -AA TAA TTA TAA TTA TAA TTAC T-A TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA
*
805972 TAA TAA TAA AAA TAA TAA
1 TAA TAA TAA TAA TAA TAA
805990 AACCGGGATA
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
2 3 0.06
3 43 0.90
4 2 0.04
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:806061 original size:35 final size:34
Alignment explanation
Indices: 806021--806386 Score: 266
Period size: 35 Copynumber: 10.3 Consensus size: 34
806011 TCTTCAATAC
* *
806021 GTTTTCAAAACCATTTCGAAAAATATATTA-TATAT
1 GTTTTCAAAATCATTT-TAAAAATATA-TACTATAT
* * * * *
806056 GTTTTCAAAACCATTTTTAAAACTATACATTATAC
1 GTTTTCAAAATCA-TTTTAAAAATATATACTATAT
*
806091 GTTTTCAAAATTATTTTAAAAATTATATACTATAT
1 GTTTTCAAAATCATTTTAAAAA-TATATACTATAT
* * *
806126 GTTTTCAAAATCATTTTTAAAACTATATATTATAC
1 GTTTTCAAAATCA-TTTTAAAAATATATACTATAT
* *
806161 ATTTTCAAAATTATTTTAAAAACTATATACTATAT
1 GTTTTCAAAATCATTTTAAAAA-TATATACTATAT
* * *
806196 GTTTTCAAAATCGTTTTAAAAACTATATATTATAC
1 GTTTTCAAAATCATTTTAAAAA-TATATACTATAT
** * ** * *
806231 GTTTTCAAAACTGTTTTTTTTTAATCTATAAATTATAT
1 GTTTTCAAAA----TCATTTTAAAAATATATACTATAT
*
806269 GTTTTCAAAATTATTTTAAAAACTATATACTATAT
1 GTTTTCAAAATCATTTTAAAAA-TATATACTATAT
* * * * *
806304 ATTTTCAAAACCGTTTTAAAAACTATATATTATAC
1 GTTTTCAAAATCATTTTAAAAA-TATATACTATAT
* * * *
806339 GTTTTTAAAAATAAGTTTCCAAAAACTATATATTATAT
1 G-TTTTCAAAATCA-TTT-TAAAAA-TATATACTATAT
*
806377 ATTTTCAAAA
1 GTTTTCAAAA
806387 ACTATATTTG
Statistics
Matches: 266, Mismatches: 52, Indels: 24
0.78 0.15 0.07
Matches are distributed among these distances:
34 25 0.09
35 167 0.63
36 19 0.07
37 11 0.04
38 37 0.14
39 7 0.03
ACGTcount: A:0.42, C:0.10, G:0.04, T:0.45
Consensus pattern (34 bp):
GTTTTCAAAATCATTTTAAAAATATATACTATAT
Found at i:806118 original size:70 final size:69
Alignment explanation
Indices: 806017--806386 Score: 355
Period size: 70 Copynumber: 5.2 Consensus size: 69
806007 AGTGTCTTCA
** * *
806017 ATACGTTTTCAAAACCATTTCGAAAAATATATTA-TATATGTTTTCAAAACCATTTTTAAAACTA
1 ATACGTTTTCAAAATTATTT-TAAAAATATA-TACTATATGTTTTCAAAATCATTTTTAAAACTA
*
806081 TACATT
64 TATATT
806087 ATACGTTTTCAAAATTATTTTAAAAATTATATACTATATGTTTTCAAAATCATTTTTAAAACTAT
1 ATACGTTTTCAAAATTATTTTAAAAA-TATATACTATATGTTTTCAAAATCATTTTTAAAACTAT
806152 ATATT
65 ATATT
* * *
806157 ATACATTTTCAAAATTATTTTAAAAACTATATACTATATGTTTTCAAAATCGTTTTAAAAACTAT
1 ATACGTTTTCAAAATTATTTTAAAAA-TATATACTATATGTTTTCAAAATCATTTTTAAAACTAT
806222 ATATT
65 ATATT
* * ** * * * *
806227 ATACGTTTTCAAAACTGTTTTTTTTTAATCTATAAATTATATGTTTTCAAAATTATTTTAAAAAC
1 ATACGTTTTCAAAA----TTATTTTAAAAATATATACTATATGTTTTCAAAATCATTTTTAAAAC
*
806292 TATATACT
62 TATATATT
** *** * * * * **
806300 ATATATTTTCAAAACCGTTTTAAAAACTATATATTATACGTTTTTAAAAATAAGTTTCCAAAAAC
1 ATACGTTTTCAAAATTATTTTAAAAA-TATATACTATATG-TTTTCAAAATCA-TTT-TTAAAAC
806365 TATATATT
62 TATATATT
**
806373 ATATATTTTCAAAA
1 ATACGTTTTCAAAA
806387 ACTATATTTG
Statistics
Matches: 257, Mismatches: 33, Indels: 17
0.84 0.11 0.06
Matches are distributed among these distances:
69 13 0.05
70 146 0.57
71 10 0.04
72 3 0.01
73 77 0.30
74 8 0.03
ACGTcount: A:0.42, C:0.11, G:0.04, T:0.44
Consensus pattern (69 bp):
ATACGTTTTCAAAATTATTTTAAAAATATATACTATATGTTTTCAAAATCATTTTTAAAACTATA
TATT
Found at i:806294 original size:108 final size:105
Alignment explanation
Indices: 806017--806386 Score: 391
Period size: 108 Copynumber: 3.5 Consensus size: 105
806007 AGTGTCTTCA
* ** * * ** *
806017 ATACGTTTTCAAAACCATTTCGAAAAATAT-ATTATATATGTTTTCAAAACCATTTTTAAAACTA
1 ATACGTTTTCAAAATCATTTTTAAAACTATAAAT-TATATGTTTTCAAAATTATTTTAAAAACTA
* * * ** * *
806081 TACATTATACGTTTTCAAAATTATTTTAAAAATTATATACT
65 TATACTATATGTTTTCAAAATCGTTTTAAAAACTATATATT
* * **
806122 ATATGTTTTCAAAATCATTTTTAAAACTATATATTATACATTTTCAAAATTATTTTAAAAACTAT
1 ATACGTTTTCAAAATCATTTTTAAAACTATAAATTATATGTTTTCAAAATTATTTTAAAAACTAT
806187 ATACTATATGTTTTCAAAATCGTTTTAAAAACTATATATT
66 ATACTATATGTTTTCAAAATCGTTTTAAAAACTATATATT
** * *
806227 ATACGTTTTCAAAACTGTTTTTTTTTAATCTATAAATTATATGTTTTCAAAATTATTTTAAAAAC
1 ATACGTTTTCAAAA---TCATTTTTAAAACTATAAATTATATGTTTTCAAAATTATTTTAAAAAC
* *
806292 TATATACTATATATTTTCAAAACCGTTTTAAAAACTATATATT
63 TATATACTATATGTTTTCAAAATCGTTTTAAAAACTATATATT
* * ** * *
806335 ATACGTTTTTAAAAATAAGTTTCCAAAAACTATATATTATATATTTTCAAAA
1 ATACG-TTTTCAAAATCA-TTT-TTAAAACTATAAATTATATGTTTTCAAAA
806387 ACTATATTTG
Statistics
Matches: 220, Mismatches: 38, Indels: 11
0.82 0.14 0.04
Matches are distributed among these distances:
105 97 0.44
106 2 0.01
107 3 0.01
108 110 0.50
109 8 0.04
ACGTcount: A:0.42, C:0.11, G:0.04, T:0.44
Consensus pattern (105 bp):
ATACGTTTTCAAAATCATTTTTAAAACTATAAATTATATGTTTTCAAAATTATTTTAAAAACTAT
ATACTATATGTTTTCAAAATCGTTTTAAAAACTATATATT
Found at i:807154 original size:12 final size:12
Alignment explanation
Indices: 807137--807161 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
807127 GTCGGATGCA
807137 ACCTTCTTGGGT
1 ACCTTCTTGGGT
807149 ACCTTCTTGGGT
1 ACCTTCTTGGGT
807161 A
1 A
807162 ATAGTGGCCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.12, C:0.24, G:0.24, T:0.40
Consensus pattern (12 bp):
ACCTTCTTGGGT
Found at i:809155 original size:11 final size:10
Alignment explanation
Indices: 809131--809164 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
809121 AAATTGGCGG
*
809131 TTTTTTTCGA
1 TTTTTTCCGA
*
809141 TTTTTCCCGA
1 TTTTTTCCGA
809151 TTTTTTCCGA
1 TTTTTTCCGA
809161 TTTT
1 TTTT
809165 CAACAGGTCC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.09, C:0.18, G:0.09, T:0.65
Consensus pattern (10 bp):
TTTTTTCCGA
Found at i:810767 original size:9 final size:9
Alignment explanation
Indices: 810755--810816 Score: 56
Period size: 9 Copynumber: 6.7 Consensus size: 9
810745 TTGTTTTGTA
810755 ATTTTTCTG
1 ATTTTTCTG
810764 ATTTTT-TG
1 ATTTTTCTG
*
810772 TATTTTTTTG
1 -ATTTTTCTG
810782 TATTTTTTCTG
1 -A-TTTTTCTG
*
810793 ATTTTT-TAT
1 ATTTTTCT-G
810802 ATTTTTCTG
1 ATTTTTCTG
810811 ATTTTT
1 ATTTTT
810817 TTAAATTCAA
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
8 3 0.07
9 29 0.64
10 6 0.13
11 7 0.16
ACGTcount: A:0.13, C:0.05, G:0.08, T:0.74
Consensus pattern (9 bp):
ATTTTTCTG
Found at i:810772 original size:19 final size:19
Alignment explanation
Indices: 810748--810816 Score: 63
Period size: 19 Copynumber: 3.6 Consensus size: 19
810738 ATACTAATTG
810748 TTTTGTAATTTTTCTG-ATT
1 TTTTGT-ATTTTTCTGTATT
*
810767 TTTTGTATTTTTTTGTATT
1 TTTTGTATTTTTCTGTATT
* *
810786 TTTTCTGATTTTT-TATATT
1 TTTTGT-ATTTTTCTGTATT
810805 TTTCTG-ATTTTT
1 TTT-TGTATTTTT
810817 TTAAATTCAA
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
18 14 0.33
19 22 0.51
20 7 0.16
ACGTcount: A:0.13, C:0.04, G:0.09, T:0.74
Consensus pattern (19 bp):
TTTTGTATTTTTCTGTATT
Found at i:810776 original size:18 final size:19
Alignment explanation
Indices: 810775--810817 Score: 70
Period size: 18 Copynumber: 2.3 Consensus size: 19
810765 TTTTTTGTAT
*
810775 TTTTTTGTATTTTTTCTGA
1 TTTTTTATATTTTTTCTGA
810794 TTTTTTATA-TTTTTCTGA
1 TTTTTTATATTTTTTCTGA
810812 TTTTTT
1 TTTTTT
810818 TAAATTCAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 15 0.65
19 8 0.35
ACGTcount: A:0.12, C:0.05, G:0.07, T:0.77
Consensus pattern (19 bp):
TTTTTTATATTTTTTCTGA
Found at i:810788 original size:29 final size:29
Alignment explanation
Indices: 810748--810817 Score: 106
Period size: 29 Copynumber: 2.4 Consensus size: 29
810738 ATACTAATTG
* *
810748 TTTTGTAATTTTTCTGATTTTTTGTATTT
1 TTTTGTATTTTTTCTGATTTTTTATATTT
810777 TTTTGTATTTTTTCTGATTTTTTATATTT
1 TTTTGTATTTTTTCTGATTTTTTATATTT
*
810806 TTCTG-ATTTTTT
1 TTTTGTATTTTTT
810818 TAAATTCAAG
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
28 7 0.18
29 31 0.82
ACGTcount: A:0.13, C:0.04, G:0.09, T:0.74
Consensus pattern (29 bp):
TTTTGTATTTTTTCTGATTTTTTATATTT
Found at i:810817 original size:19 final size:19
Alignment explanation
Indices: 810764--810819 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 19
810754 AATTTTTCTG
*
810764 ATTTTT-TGTATTTTTTTGT
1 ATTTTTCTG-ATTTTTTTAT
810783 ATTTTTTCTGA-TTTTTTAT
1 A-TTTTTCTGATTTTTTTAT
810802 ATTTTTCTGATTTTTTTA
1 ATTTTTCTGATTTTTTTA
810820 AATTCAAGTA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
18 9 0.27
19 16 0.48
20 6 0.18
21 2 0.06
ACGTcount: A:0.14, C:0.04, G:0.07, T:0.75
Consensus pattern (19 bp):
ATTTTTCTGATTTTTTTAT
Found at i:811460 original size:2 final size:2
Alignment explanation
Indices: 811453--811478 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
811443 TTTGTCTGAT
811453 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
811479 CATTAATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:811780 original size:36 final size:36
Alignment explanation
Indices: 811628--811947 Score: 352
Period size: 36 Copynumber: 8.8 Consensus size: 36
811618 TACAAATGAT
*
811628 TTTTGAAAATATATAT-ATAATATAGTTTTCAATAACA
1 TTTTGAAAATATATATAAT-ATATAGTTTTGAA-AACA
* *
811665 TTTTCAAAATATATATAATATATAGTTTTTGAAAATA
1 TTTTGAAAATATATATAATATATAG-TTTTGAAAACA
811702 TTTTGAAAAATATATATATAATATATAGTTTTTGAAAACA
1 TTTTG--AAA-ATATATATAATATATAG-TTTTGAAAACA
* *
811742 TTTT-AAAATTTTATATAATATATAGTTTTGAAATCA
1 TTTTGAAAA-TATATATAATATATAGTTTTGAAAACA
*
811778 TTTTGAAAACT-CATATAATATATAGTTTT-AAAACA
1 TTTTGAAAA-TATATATAATATATAGTTTTGAAAACA
*
811813 TTTTTGAAAACATATATAATATATAGTTTT-AAAACA
1 -TTTTGAAAATATATATAATATATAGTTTTGAAAACA
*
811849 TTTTTGAAAA-CTATATAATATATAGTTTTGAAAACA
1 -TTTTGAAAATATATATAATATATAGTTTTGAAAACA
* * *
811885 -TTT-AAAAAATATATAATGTATAGTTTT-AAAATA
1 TTTTGAAAATATATATAATATATAGTTTTGAAAACA
* *
811918 TTTTTAAAAATATATATATTATATAGTTTT
1 -TTTTGAAAATATATATAATATATAGTTTT
811948 TGGAAATATT
Statistics
Matches: 250, Mismatches: 19, Indels: 29
0.84 0.06 0.10
Matches are distributed among these distances:
33 9 0.04
34 20 0.08
35 26 0.10
36 101 0.40
37 51 0.20
38 8 0.03
39 3 0.01
40 32 0.13
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.45
Consensus pattern (36 bp):
TTTTGAAAATATATATAATATATAGTTTTGAAAACA
Found at i:811896 original size:25 final size:24
Alignment explanation
Indices: 811850--811897 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
811840 TTTAAAACAT
* *
811850 TTTTGAAAACTATATAATATATAG
1 TTTTGAAAACTATAAAAAATATAG
*
811874 TTTTGAAAACATTTAAAAAATATA
1 TTTTGAAAAC-TATAAAAAATATA
811898 TAATGTATAG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.50, C:0.04, G:0.06, T:0.40
Consensus pattern (24 bp):
TTTTGAAAACTATAAAAAATATAG
Found at i:811981 original size:3 final size:3
Alignment explanation
Indices: 811954--812022 Score: 68
Period size: 3 Copynumber: 21.7 Consensus size: 3
811944 TTTTTGGAAA
811954 TAT TAT ATAT ATAT ATAT ATAT TAT TAT TAT TAT TAT TAT TAT TATT
1 TAT TAT -TAT -TAT -TAT -TAT TAT TAT TAT TAT TAT TAT TAT TA-T
* *
812001 TGT TTT TAT TAT TAT T-T TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TA
812023 ACATTTTTAT
Statistics
Matches: 60, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
2 2 0.03
3 41 0.68
4 17 0.28
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:813419 original size:18 final size:18
Alignment explanation
Indices: 813392--813426 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
813382 TTATTTAGTG
*
813392 TTATTTTTTTACTTATTA
1 TTATTATTTTACTTATTA
*
813410 TTATTATTTTATTTATT
1 TTATTATTTTACTTATT
813427 TACTTTTAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (18 bp):
TTATTATTTTACTTATTA
Found at i:813470 original size:19 final size:18
Alignment explanation
Indices: 813443--813478 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
813433 TAAAATTTAA
*
813443 CATTTTTTTATCTTTTTTT
1 CATTATTTTAT-TTTTTTT
813462 CATTATTTTATTTTTTT
1 CATTATTTTATTTTTTT
813479 CTTTGATTTA
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:0.14, C:0.08, G:0.00, T:0.78
Consensus pattern (18 bp):
CATTATTTTATTTTTTTT
Found at i:813499 original size:51 final size:51
Alignment explanation
Indices: 813393--813587 Score: 152
Period size: 51 Copynumber: 3.7 Consensus size: 51
813383 TATTTAGTGT
* * **
813393 TATTTTTTTA-CTTATTATTATTATTTTATTTATTTACTTTTA-AAATTTAA
1 TATTTTTTTATCTTATTTTTATTATTTTATTT-TTTACTTTGATTTATTTAA
* *
813443 CATTTTTTTATCTT-TTTTTCATTATTTTATTTTTTTCTTTGATTTATTTAA
1 TATTTTTTTATCTTATTTTT-ATTATTTTATTTTTTACTTTGATTTATTTAA
813494 TATTTTACATTT-T-TTATTTATGTTATT-TTTTACTTTTTTACTTTTGATTTATTTAA
1 TATTTT---TTTATCTTA-TT-T-TTATTATTTTA-TTTTTTAC-TTTGATTTATTTAA
* *
813550 TATTTTTCATTTTTCTTA-TTTTATTTTTTTATTTTTTA
1 TA-TTTT--TTTATCTTATTTTTATTATTTTATTTTTTA
813588 TTTTTCCTTT
Statistics
Matches: 121, Mismatches: 8, Indels: 28
0.77 0.05 0.18
Matches are distributed among these distances:
50 21 0.17
51 26 0.21
52 2 0.02
53 1 0.01
54 22 0.18
55 17 0.14
56 24 0.20
57 5 0.04
58 3 0.02
ACGTcount: A:0.22, C:0.06, G:0.02, T:0.71
Consensus pattern (51 bp):
TATTTTTTTATCTTATTTTTATTATTTTATTTTTTACTTTGATTTATTTAA
Found at i:813514 original size:25 final size:24
Alignment explanation
Indices: 813484--813533 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 24
813474 TTTTTCTTTG
813484 ATTTAT-TTAATATTTTACATTTTTT
1 ATTTATGTT-ATATTTTAC-TTTTTT
*
813509 ATTTATGTTATTTTTTACTTTTTT
1 ATTTATGTTATATTTTACTTTTTT
813533 A
1 A
813534 CTTTTGATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 7 0.30
25 14 0.61
26 2 0.09
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.70
Consensus pattern (24 bp):
ATTTATGTTATATTTTACTTTTTT
Found at i:813520 original size:30 final size:29
Alignment explanation
Indices: 813465--813607 Score: 86
Period size: 29 Copynumber: 5.0 Consensus size: 29
813455 TTTTTTTCAT
* *
813465 TATTTTATTTTTTTCTTTGATTTATTTAA
1 TATTTTAATTTTTTATTTGATTTATTTAA
813494 TATTTTACATTTTTTATTT-ATGTTA--T--
1 TATTTTA-ATTTTTTATTTGAT-TTATTTAA
*
813520 T-TTTTACTTTTTTACTTTTGATTTATTTAA
1 TATTTTAATTTTTTA--TTTGATTTATTTAA
* * *
813550 TATTTTTCATTTTTCTTATTTTATTT-TTTTA
1 TA-TTTT-AATTTT-TTATTTGATTTATTTAA
* **
813581 T-TTTTTATTTTTCCTTTGATTTATTTA
1 TATTTTAATTTTTTATTTGATTTATTTA
813608 CTTATTATTT
Statistics
Matches: 88, Mismatches: 12, Indels: 29
0.68 0.09 0.22
Matches are distributed among these distances:
24 7 0.08
25 5 0.06
26 7 0.08
27 10 0.11
28 9 0.10
29 13 0.15
30 13 0.15
31 5 0.06
32 11 0.12
33 5 0.06
34 3 0.03
ACGTcount: A:0.19, C:0.06, G:0.03, T:0.73
Consensus pattern (29 bp):
TATTTTAATTTTTTATTTGATTTATTTAA
Found at i:813540 original size:56 final size:55
Alignment explanation
Indices: 813431--813592 Score: 177
Period size: 56 Copynumber: 2.9 Consensus size: 55
813421 TTTATTTACT
* * * *
813431 TTTAAAATTTAACATTTTTTTATCTTTTTTTCATTATTTTATTTTTTTC-TTTGATTTA
1 TTTAATATTTTACA-TTTTTTAT-TTATTTT-ATT-TTTTATTTTTTACTTTTGATTTA
*
813489 TTTAATATTTTACATTTTTTATTTATGTTATTTTTTACTTTTTTACTTTTGATTTA
1 TTTAATATTTTACATTTTTTATTTATTTTATTTTTTA-TTTTTTACTTTTGATTTA
* * *
813545 TTTAATATTTTTCA-TTTTT-CTTATTTTATTTTTTTATTTTTTATTTTT
1 TTTAATATTTTACATTTTTTATTTATTTTA-TTTTTTATTTTTTACTTTT
813593 CCTTTGATTT
Statistics
Matches: 92, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
54 23 0.25
55 22 0.24
56 27 0.29
57 8 0.09
58 12 0.13
ACGTcount: A:0.20, C:0.06, G:0.02, T:0.72
Consensus pattern (55 bp):
TTTAATATTTTACATTTTTTATTTATTTTATTTTTTATTTTTTACTTTTGATTTA
Found at i:813577 original size:15 final size:15
Alignment explanation
Indices: 813505--813592 Score: 54
Period size: 15 Copynumber: 5.7 Consensus size: 15
813495 ATTTTACATT
* *
813505 TTTTATTTATGTTATT
1 TTTTATTT-TTTTATA
*
813521 TTTTACTTTTTTACT-
1 TTTTATTTTTTTA-TA
* *
813536 TTTGATTTATTTAATA
1 TTTTATTT-TTTTATA
*
813552 TTTTTCATTTTTCT-TA
1 -TTTT-ATTTTTTTATA
*
813568 TTTTATTTTTTTATT
1 TTTTATTTTTTTATA
813583 TTTTATTTTT
1 TTTTATTTTT
813593 CCTTTGATTT
Statistics
Matches: 56, Mismatches: 10, Indels: 13
0.71 0.13 0.16
Matches are distributed among these distances:
14 7 0.12
15 26 0.46
16 14 0.25
17 5 0.09
18 4 0.07
ACGTcount: A:0.17, C:0.05, G:0.02, T:0.76
Consensus pattern (15 bp):
TTTTATTTTTTTATA
Found at i:813613 original size:31 final size:30
Alignment explanation
Indices: 813506--813613 Score: 87
Period size: 29 Copynumber: 3.4 Consensus size: 30
813496 TTTTACATTT
*
813506 TTTATTTATGTTATTTTTTACTTTTTTACTTTTGA
1 TTTATTTA--TTATTTTTTA--TTTTT-CCTTTGA
* *
813541 TTTATTTAATATTTTTCATTTTT-C-TT-A
1 TTTATTTATTATTTTTTATTTTTCCTTTGA
*
813568 TTTTATTTTTTTATTTTTTATTTTTCCTTTGA
1 -TTTA-TTTATTATTTTTTATTTTTCCTTTGA
813600 TTTATTTACTTATT
1 TTTATTTA-TTATT
813614 ATTTCTTATC
Statistics
Matches: 60, Mismatches: 7, Indels: 16
0.72 0.08 0.19
Matches are distributed among these distances:
27 1 0.02
28 6 0.10
29 16 0.27
30 4 0.07
31 16 0.27
32 1 0.02
33 8 0.13
35 8 0.13
ACGTcount: A:0.18, C:0.06, G:0.03, T:0.73
Consensus pattern (30 bp):
TTTATTTATTATTTTTTATTTTTCCTTTGA
Found at i:816659 original size:26 final size:26
Alignment explanation
Indices: 816600--816659 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 26
816590 ATTTCGAATT
*
816600 AATTAAATTCTTAATTAATTAATTCA
1 AATTAAATTCATAATTAATTAATTCA
* * *
816626 TATCAAATTCATATTTAATTAATTCA
1 AATTAAATTCATAATTAATTAATTCA
816652 AATTAAAT
1 AATTAAAT
816660 ATCCATTAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (26 bp):
AATTAAATTCATAATTAATTAATTCA
Found at i:816734 original size:77 final size:79
Alignment explanation
Indices: 816637--816782 Score: 199
Period size: 77 Copynumber: 1.9 Consensus size: 79
816627 ATCAAATTCA
* *
816637 TATTTAATTAATTCAAATTAAATATCCATT-AAAGACTTATAATCTGAATTACACTC-TTTAACG
1 TATTTAATTAATTCAAATTAAAAATCCATTAAAAGACTTATAATCAGAATTACACTCTTTTAACG
816700 TTTATTTAAAATCT
66 TTTATTTAAAATCT
* * * * *
816714 TATTTAATT-ATTCCGAATTAAAAATCCATTAAAAGAGTTGTAATCAGAATTACATTCTTTTAAT
1 TATTTAATTAATT-CAAATTAAAAATCCATTAAAAGACTTATAATCAGAATTACACTCTTTTAAC
816778 GTTTA
65 GTTTA
816783 CTTACCATAT
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
76 3 0.05
77 24 0.41
78 22 0.37
79 10 0.17
ACGTcount: A:0.40, C:0.12, G:0.06, T:0.42
Consensus pattern (79 bp):
TATTTAATTAATTCAAATTAAAAATCCATTAAAAGACTTATAATCAGAATTACACTCTTTTAACG
TTTATTTAAAATCT
Found at i:819295 original size:15 final size:15
Alignment explanation
Indices: 819275--819307 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
819265 CATCTAGTCC
819275 GCCAGTATAGGTTTA
1 GCCAGTATAGGTTTA
819290 GCCAGTATAGGTTTA
1 GCCAGTATAGGTTTA
819305 GCC
1 GCC
819308 TGTGTGCGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.30
Consensus pattern (15 bp):
GCCAGTATAGGTTTA
Found at i:825185 original size:182 final size:180
Alignment explanation
Indices: 824975--825558 Score: 904
Period size: 182 Copynumber: 3.3 Consensus size: 180
824965 GATACAAATA
* * *
824975 AAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACC
1 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACCGGTCTCG-AATGACA
*
825040 AAACCGGTAAAGCGCTACTGGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCAACACTTT
65 AAACCGGTAAAGCGCTACTGGATATGTTGAAAGTGTCGATACTTTATTATAAGTATCAACACTTT
825105 TGGAATTTAAAAGACAAGCAATAATAGCGCCTATAAAGTGTCGATACTTTAT
130 TGGAATTTAAAAGACAAGC-ATAATAGCGCCTATAAAGTGTCGATACTTTAT
825157 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACCGGTCTTACG-ATGAC
1 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACCGGTC-T-CGAATGAC
** *
825221 AAAACCGGTAAAGCGCTACCAGATATGTTGAAAGTGTCAATACTTTATTATAAGTATCAACACTT
64 AAAACCGGTAAAGCGCTACTGGATATGTTGAAAGTGTCGATACTTTATTATAAGTATCAACACTT
*
825286 TTGGAATTTAAAAGACAAGC-----A--G--TA-ATAGTGTCGATACTTTAT
129 TTGGAATTTAAAAGACAAGCATAATAGCGCCTATAAAGTGTCGATACTTTAT
*
825328 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACCGATCTC-ACGATGAC
1 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACCGGTCTCGA--ATGAC
* * *
825392 AAAACCGGTAAAGTGCTACTGGATATATTGAAAGTGTCGATACTTTATTATAAGTATCGACACTT
64 AAAACCGGTAAAGCGCTACTGGATATGTTGAAAGTGTCGATACTTTATTATAAGTATCAACACTT
825457 TTGGAATTTAAAAGACAAGCAGTAATAGCGCCTATAAAGTGTCGATACTTTAT
129 TTGGAATTTAAAAGACAAGCA-TAATAGCGCCTATAAAGTGTCGATACTTTAT
*
825510 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGAAAAAAC
1 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAAC
825559 TGGTAAAGAG
Statistics
Matches: 369, Mismatches: 17, Indels: 32
0.88 0.04 0.08
Matches are distributed among these distances:
169 1 0.00
170 1 0.00
171 154 0.42
172 2 0.01
174 1 0.00
176 1 0.00
177 1 0.00
179 1 0.00
181 2 0.01
182 202 0.55
183 1 0.00
184 2 0.01
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.27
Consensus pattern (180 bp):
AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACCGGTCTCGAATGACAA
AACCGGTAAAGCGCTACTGGATATGTTGAAAGTGTCGATACTTTATTATAAGTATCAACACTTTT
GGAATTTAAAAGACAAGCATAATAGCGCCTATAAAGTGTCGATACTTTAT
Found at i:825620 original size:162 final size:161
Alignment explanation
Indices: 825387--825723 Score: 530
Period size: 162 Copynumber: 2.1 Consensus size: 161
825377 CGATCTCACG
* ** * * *
825387 ATGACAAAACCGGTAAAGTGCTACTGGATATATTGAAAGTGTCGATACTTTATTATAAGTATCGA
1 ATGACAAAACCGGTAAAGAGCTACCAGATATATTGAAAGTGTCGATACATTAATATAAGTATAGA
*
825452 CACTTTTGGAATTTAAAAGACAAGCAGTAATAGCGCCTATAAAGTGTCGATACTTTATAAAAATG
66 CACTTTTGGAATTTAAAAGACAAGCAGTAATAGCGCCTATAAAGTGTCGATACTTTAT-AAAATA
825517 TATCGATCCATAACAATATAACAGGTAAAAAT
130 TATCGATCCATAACAATATAACAGGTAAAAAT
* * *
825549 ATGAAAAAACTGGTAAAGAGCTACCAGATATGTTGAAAGTGTCGATACATTAATATAAGTATAGA
1 ATGACAAAACCGGTAAAGAGCTACCAGATATATTGAAAGTGTCGATACATTAATATAAGTATAGA
* *
825614 CACTTTTGGAATTTAAAAGAGAAGCAGTTATAGCGCCTATAAAGTGTCGATACTTTATAAAATAT
66 CACTTTTGGAATTTAAAAGACAAGCAGTAATAGCGCCTATAAAGTGTCGATACTTTATAAAATAT
* * *
825679 ATTGATCCATAATATTATAACAGGTAAAAAT
131 ATCGATCCATAACAATATAACAGGTAAAAAT
825710 ATGACAAAACCGGT
1 ATGACAAAACCGGT
825724 CTCAAAATGA
Statistics
Matches: 158, Mismatches: 17, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
161 46 0.29
162 112 0.71
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (161 bp):
ATGACAAAACCGGTAAAGAGCTACCAGATATATTGAAAGTGTCGATACATTAATATAAGTATAGA
CACTTTTGGAATTTAAAAGACAAGCAGTAATAGCGCCTATAAAGTGTCGATACTTTATAAAATAT
ATCGATCCATAACAATATAACAGGTAAAAAT
Found at i:827683 original size:22 final size:23
Alignment explanation
Indices: 827632--827687 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
827622 AACGTTTTTT
* *
827632 TTTTTTTATATAAAATGATAGTA
1 TTTTATTATATAAAATGATAGAA
*
827655 TAATTATTATATAAAATGATA-AA
1 T-TTTATTATATAAAATGATAGAA
827678 TTTTATTATA
1 TTTTATTATA
827688 AATGCAAGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
22 8 0.29
23 3 0.11
24 17 0.61
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (23 bp):
TTTTATTATATAAAATGATAGAA
Found at i:828305 original size:15 final size:17
Alignment explanation
Indices: 828275--828321 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
828265 ACAATGAACT
* *
828275 GAAAAAATATGAAG-AA
1 GAAAAAAGATGGAGAAA
828291 G-AAAAAGATGGAGAAA
1 GAAAAAAGATGGAGAAA
828307 GAAGAAAAGATGGAG
1 GAA-AAAAGATGGAG
828322 GAAATGAGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
15 10 0.38
16 4 0.15
17 1 0.04
18 11 0.42
ACGTcount: A:0.62, C:0.00, G:0.30, T:0.09
Consensus pattern (17 bp):
GAAAAAAGATGGAGAAA
Found at i:828325 original size:19 final size:19
Alignment explanation
Indices: 828286--828321 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
828276 AAAAAATATG
828286 AAGAAGAAAAAGATGGAGA
1 AAGAAGAAAAAGATGGAGA
828305 AAGAAG-AAAAGATGGAG
1 AAGAAGAAAAAGATGGAG
828322 GAAATGAGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.61, C:0.00, G:0.33, T:0.06
Consensus pattern (19 bp):
AAGAAGAAAAAGATGGAGA
Found at i:830460 original size:20 final size:20
Alignment explanation
Indices: 830435--830487 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
830425 CGATAATTAC
*
830435 AATGTAATAGGTAAATTAAA
1 AATGTAACAGGTAAATTAAA
* *
830455 AATGTAACCGGTAAATTAAC
1 AATGTAACAGGTAAATTAAA
*
830475 AATGTAACCGGTA
1 AATGTAACAGGTA
830488 TAAATCTACT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.47, C:0.09, G:0.17, T:0.26
Consensus pattern (20 bp):
AATGTAACAGGTAAATTAAA
Found at i:830688 original size:20 final size:19
Alignment explanation
Indices: 830641--830688 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
830631 AAAACATCGA
830641 AACTGAT-AATTACAATGT
1 AACTGATAAATTACAATGT
*
830659 AA-TAGGTAAATTAACAATGT
1 AACT-GATAAATT-ACAATGT
830679 AACTGATAAA
1 AACTGATAAA
830689 AATCTATCGG
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
17 1 0.04
18 4 0.17
19 4 0.17
20 14 0.58
21 1 0.04
ACGTcount: A:0.50, C:0.08, G:0.12, T:0.29
Consensus pattern (19 bp):
AACTGATAAATTACAATGT
Found at i:830798 original size:199 final size:198
Alignment explanation
Indices: 830455--831119 Score: 756
Period size: 199 Copynumber: 3.4 Consensus size: 198
830445 GTAAATTAAA
** * * *
830455 AATGTAACCGGTAAATTAACAATGTAACCGGTATAAATCTACTGATTTTATGAGAAAATAGGTCT
1 AATGTAATAGGTAAATTAACAATGTAACCGATAAAAATCTACTGGTTTTATGAGAAAATAGGTCT
*
830520 ACATAAAGTATCGACACAAATTTAGAAAGTGTCGATACTTTTTGGCCACAATGATGCCAAAACTA
66 ACATAAAGTATCGACACAAATTTAGAAAGTGTTGATACTTTTT-GCCACAATGATGCCAAAACTA
* *
830585 GGTGCACACATAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCGAAACTGATAA
130 GGTGCACGCATAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCGAAACCGATAA
830650 TTAC
195 TTAC
*
830654 AATGTAATAGGTAAATTAACAATGTAACTGATAAAAATCTA-TCGGTTTTATGAGAAAATAGGTC
1 AATGTAATAGGTAAATTAACAATGTAACCGATAAAAATCTACT-GGTTTTATGAGAAAATAGGTC
* * *
830718 TGCATAAAGTATCAACACAAATTTAGAAAGTGTTGATACTTTTTAGCCATAATGATGCCAAAACT
65 TACATAAAGTATCGACACAAATTTAGAAAGTGTTGATACTTTTT-GCCACAATGATGCCAAAACT
* *
830783 AGGTGCACGCATAAAGTGTCGATACATTTAAAATTATATCGATCCCAAAAACATCGAAACCCATA
129 AGGTGCACGCATAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCGAAACCGATA
*
830848 ATTAT
194 ATTAC
* * *** * * *
830853 AATTTAATAGG-----TAAC----T----GATAAAAATATAC--CAATAATTAGAAAATAGGTTT
1 AATGTAATAGGTAAATTAACAATGTAACCGATAAAAATCTACTGGTTTTATGAGAAAATAGGTCT
* ** ** * * *
830903 ACATAATGTATCGACAC-TTTTTA-AATTTATATCGATACTTTTTGTCTAGAATGAATGCC-AAA
66 ACATAAAGTATCGACACAAATTTAGAAAGTGT-T-GATACTTTTTG-CCACAATG-ATGCCAAAA
** * * *
830965 CGGGGTGAACGCATAAAGTGTCGATACATTTTAAATTGTATCGATCCAAAAAACATCGAAACCGA
127 CTAGGTGCACGCATAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCGAAACCGA
831030 TAATTAC
192 TAATTAC
* * * *
831037 AATGTAATCGGTAAATTAACAATGTAACCGATATAAATTTACTGGTTTTATGATAAAATAGGTCT
1 AATGTAATAGGTAAATTAACAATGTAACCGATAAAAATCTACTGGTTTTATGAGAAAATAGGTCT
* *
831102 ACATAATGTATCGTCACA
66 ACATAAAGTATCGACACA
831120 TTTTAAATTT
Statistics
Matches: 390, Mismatches: 54, Indels: 43
0.80 0.11 0.09
Matches are distributed among these distances:
182 4 0.01
183 6 0.02
184 121 0.31
185 5 0.01
186 11 0.03
189 4 0.01
190 1 0.00
193 1 0.00
194 4 0.01
197 11 0.03
198 1 0.00
199 221 0.57
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (198 bp):
AATGTAATAGGTAAATTAACAATGTAACCGATAAAAATCTACTGGTTTTATGAGAAAATAGGTCT
ACATAAAGTATCGACACAAATTTAGAAAGTGTTGATACTTTTTGCCACAATGATGCCAAAACTAG
GTGCACGCATAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCGAAACCGATAAT
TAC
Found at i:832704 original size:19 final size:19
Alignment explanation
Indices: 832680--832727 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
832670 ATGCAGGGGA
832680 AATTTTGTATACGATTCAT
1 AATTTTGTATACGATTCAT
832699 AATTTTGTATACGATTCAT
1 AATTTTGTATACGATTCAT
*
832718 AATTTAGTAT
1 AATTTTGTAT
832728 GTGAATATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.33, C:0.08, G:0.10, T:0.48
Consensus pattern (19 bp):
AATTTTGTATACGATTCAT
Found at i:835922 original size:198 final size:198
Alignment explanation
Indices: 835451--835942 Score: 666
Period size: 200 Copynumber: 2.5 Consensus size: 198
835441 GTAAACATAT
* * * *
835451 GTGTCGATACATTTATAAAAGTATCGACCCCAAAAACATTGAAACCAATAATTATAATGTGATAG
1 GTGTCGATACATTTATAAAAGTATCGA-TCCAAAAACATCGAAACCGATAATTATAATGTAATAG
* * * * * *
835516 GTAAATTAAAAATGTAATCGGTATAAATATATCGGTTAATTACAAAACATGTCAACATAATGTAT
65 GTAAATTTACAATGTAACCGGTATAAATACACCGGTTAATGACAAAACATGTCAACATAATGTAT
* ** * *
835581 CGACACTTATGGAATTTGTGTCGATACTTATTTTCCAGAATGAATGCCCAAACGAGGTGCATGCA
130 CGACACTTATGAAATTTGTGTCGATAAGTATTTTCCAGAATAAATGCCCAAACGAGGTGCACGCA
835646 TAAA
195 TAAA
* *
835650 GTGCCGATACATTTATTAAAAGTATCGATCTCAAAAGCATCGAAACCGATAATTATAATGTAATA
1 GTGTCGATACATTTA-TAAAAGTATCGATC-CAAAAACATCGAAACCGATAATTATAATGTAATA
* * * * * *
835715 GGTAAATTTACAATGTAACCAGTATAAATACACCGATTTTATGAGAGAATATGTCAACATAATGT
64 GGTAAATTTACAATGTAACCGGTATAAATACACCG-GTTAATGACAAAACATGTCAACATAATGT
* *
835780 ATCGACACTTTTTAAATTTGTGTCGATAAGT-TTTTCCAGAATAAATGCCC-AACGAGGTGCACG
128 ATCGACACTTATGAAATTTGTGTCGATAAGTATTTTCCAGAATAAATGCCCAAACGAGGTGCACG
835843 CATAAA
193 CATAAA
*
835849 GTGTCGATACATTTA-AAATTGTATCGATGCCAAAAACATCGAAACCGATAATTATAATGTAATA
1 GTGTCGATACATTTATAAA-AGTATCGAT-CCAAAAACATCGAAACCGATAATTATAATGTAATA
*
835913 GGTAAATTTACAATGTTACCGGTATAAATA
64 GGTAAATTTACAATGTAACCGGTATAAATA
835943 AACTCGTTTA
Statistics
Matches: 258, Mismatches: 30, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
197 3 0.01
198 69 0.27
199 48 0.19
200 89 0.34
201 49 0.19
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (198 bp):
GTGTCGATACATTTATAAAAGTATCGATCCAAAAACATCGAAACCGATAATTATAATGTAATAGG
TAAATTTACAATGTAACCGGTATAAATACACCGGTTAATGACAAAACATGTCAACATAATGTATC
GACACTTATGAAATTTGTGTCGATAAGTATTTTCCAGAATAAATGCCCAAACGAGGTGCACGCAT
AAA
Found at i:836116 original size:87 final size:87
Alignment explanation
Indices: 835970--836131 Score: 279
Period size: 87 Copynumber: 1.9 Consensus size: 87
835960 AATAAGTCAA
* * *
835970 TATAAGCGCTACCTATTACATTATATAATCGCTACCTGATACGTTATTGTACTTGATAATATTTC
1 TATAAGCGCTACCTATTAAATTATATAAGCGCTACCTAATACGTTATTGTACTTGATAATATTTC
836035 CGGTTAAATGTCTATTTTATTT
66 CGGTTAAATGTCTATTTTATTT
* *
836057 TATAAGCGCTACCTATTAAATTATATAAGCGTTACCTAATATGTTATTGTACTTGATAATATTTC
1 TATAAGCGCTACCTATTAAATTATATAAGCGCTACCTAATACGTTATTGTACTTGATAATATTTC
836122 CGGTTAAATG
66 CGGTTAAATG
836132 ATATAACATA
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 70 1.00
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.42
Consensus pattern (87 bp):
TATAAGCGCTACCTATTAAATTATATAAGCGCTACCTAATACGTTATTGTACTTGATAATATTTC
CGGTTAAATGTCTATTTTATTT
Found at i:837282 original size:23 final size:22
Alignment explanation
Indices: 837239--837283 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
837229 TAAATAATAT
* * *
837239 TAATTATTATTTTCAATAATTA
1 TAATTATCATTTTAAAAAATTA
837261 TAATTAATCATTTTAAAAAATTA
1 TAATT-ATCATTTTAAAAAATTA
837284 CCAATAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (22 bp):
TAATTATCATTTTAAAAAATTA
Found at i:846442 original size:138 final size:138
Alignment explanation
Indices: 845135--846428 Score: 1934
Period size: 138 Copynumber: 9.4 Consensus size: 138
845125 ACCGTTTCTG
* *
845135 GGGGTGCGCCTTCTATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGT-
1 GGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTC
* * * *
845199 CCCCGGGGCACTATTCATGTCAGTACCTATTATGTTTGAGGGTATGCAACAAAGTGCTGAAAACG
66 CCCCGGGGCACTATTCATGTCAGTACCTATTATGTTTGAGGGGACGCAACAAAGTGGTGAAAGCG
*
845264 CGTTTCCG
131 CGTTTCCA
* ***
845272 GGGGCGCGCCTTCCATTATTTTGTGAGAGAATATGTTATCATTAATCTATTATGTCACTCATGTC
1 GGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTC
* *
845337 ACCCGGGAGCACTATTCATGTCAGTACCTATTATGTTTGAGGGGACACAACAAAGTGGTGAAAGC
66 CCCCGGG-GCACTATTCATGTCAGTACCTATTATGTTTGAGGGGACGCAACAAAGTGGTGAAAGC
* * *
845402 ACGTTTTCG
130 GCGTTTCCA
845411 GGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTC
1 GGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTC
* * * * * *
845476 CCCTGAGAGCACAATTCATGTCAATACCTATTATGTTTGAGGGGACGCAACAAAGTGGTTAAAGA
66 CCCCG-GGGCACTATTCATGTCAGTACCTATTATGTTTGAGGGGACGCAACAAAGTGGTGAAAGC
* *
845541 ACATTTCC-
130 GCGTTTCCA
* * * *
845549 GAGGCACGCCTTCCATTATTTTATCAGAGAATATGTTATCATTGCCCTATTATGTCACTTATGTC
1 GGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTC
* * *
845614 CCCCGGGGGTACTATTTATATCAGTACCTATTATGTTTGAGGGGACGCAACAAAGTGGTGAAAGC
66 CCCC-GGGGCACTATTCATGTCAGTACCTATTATGTTTGAGGGGACGCAACAAAGTGGTGAAAGC
*
845679 ACGTTTCCA
130 GCGTTTCCA
* *
845688 GGGGCGTGCCTTCCATTATTTTGTCAAAGAATATGTTATCATTGCCCTATTATGTCACTCATGTC
1 GGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTC
*
845753 CCCCTGGGCACTATTCATGTCAGTACCTATTATGTTTGAGGGGACGCAACAAAGTGGTGAAAGCG
66 CCCCGGGGCACTATTCATGTCAGTACCTATTATGTTTGAGGGGACGCAACAAAGTGGTGAAAGCG
**
845818 CGTTTCTG
131 CGTTTCCA
* * * * *
845826 GGGGTGCACCTTCTATTATTTTGTCAGAAAATATGTTATCATTGCCATATTATGTCACTCATGTC
1 GGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTC
*
845891 CCCCGAGGCACTATTCATGTCAGTACCTATTATGTTTGAGGGGACGCAACAAAGTGGTGAAAGCG
66 CCCCGGGGCACTATTCATGTCAGTACCTATTATGTTTGAGGGGACGCAACAAAGTGGTGAAAGCG
845956 CGTTTCCA
131 CGTTTCCA
* * *
845964 -GGGCGTGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTTATAT-
1 GGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTC
*
846027 CCCTGGGGCACTATTCATGTCAGTACCTATTATGTTTGAGGGGACGCAACAAAGTGGTGAAAGCG
66 CCCCGGGGCACTATTCATGTCAGTACCTATTATGTTTGAGGGGACGCAACAAAGTGGTGAAAGCG
*
846092 CATTTCCA
131 CGTTTCCA
* *
846100 GGGGCGTGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTTATGT-
1 GGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTC
*
846164 CCCTGGGGCACTATTCATGTCAGTACCTATTATGTTTGAGGGGACGCAACAAAGTGGTGAAAGCG
66 CCCCGGGGCACTATTCATGTCAGTACCTATTATGTTTGAGGGGACGCAACAAAGTGGTGAAAGCG
846229 CGTTTCCA
131 CGTTTCCA
**
846237 GGGGCATGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTC
1 GGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTC
** *
846302 CCCCGGGGCACTATTCATG-CTAGTACCTATTATGTTTGAGGGGACGCAGGAAAGTGGTAAAAGC
66 CCCCGGGGCACTATTCATGTC-AGTACCTATTATGTTTGAGGGGACGCAACAAAGTGGTGAAAGC
* * *
846366 TCATTTCAA
130 GCGTTTCCA
* * * * *
846375 GGGGCGCACCTTCGATTATTATGTTAGAGAATATGTTATAATTGCCCTATTATG
1 GGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATG
846429 CGAGTAATGT
Statistics
Matches: 1054, Mismatches: 95, Indels: 15
0.91 0.08 0.01
Matches are distributed among these distances:
136 70 0.07
137 310 0.29
138 428 0.41
139 245 0.23
140 1 0.00
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.33
Consensus pattern (138 bp):
GGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTC
CCCCGGGGCACTATTCATGTCAGTACCTATTATGTTTGAGGGGACGCAACAAAGTGGTGAAAGCG
CGTTTCCA
Found at i:846633 original size:23 final size:22
Alignment explanation
Indices: 846586--846635 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 22
846576 TGAAGTTTGA
* *
846586 ATAAATTGATAAAATGTTATGG
1 ATAAATTGATAAAATGTGAAGG
846608 ATAAATTGA-ATAAATGTGAAGTG
1 ATAAATTGATA-AAATGTGAAG-G
846631 ATAAA
1 ATAAA
846636 GTAAACATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 1 0.04
22 17 0.71
23 6 0.25
ACGTcount: A:0.50, C:0.00, G:0.18, T:0.32
Consensus pattern (22 bp):
ATAAATTGATAAAATGTGAAGG
Found at i:847474 original size:21 final size:21
Alignment explanation
Indices: 847450--847510 Score: 97
Period size: 21 Copynumber: 2.9 Consensus size: 21
847440 ATAAAACCCT
847450 GCGGGCTAGACATGTAACCTG
1 GCGGGCTAGACATGTAACCTG
*
847471 GCGGGCTAGGCATGTAACCTG
1 GCGGGCTAGACATGTAACCTG
847492 GCGGGCTAGGA-ATGTAACC
1 GCGGGCTA-GACATGTAACC
847511 CTACAGGCTA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
21 36 0.97
22 1 0.03
ACGTcount: A:0.23, C:0.23, G:0.36, T:0.18
Consensus pattern (21 bp):
GCGGGCTAGACATGTAACCTG
Found at i:847519 original size:21 final size:20
Alignment explanation
Indices: 847495--847558 Score: 92
Period size: 21 Copynumber: 3.1 Consensus size: 20
847485 TAACCTGGCG
847495 GGCTAGGAATGTAACCCTAC
1 GGCTAGGAATGTAACCCTAC
847515 AGGCTAGGAATGTAACCCTAC
1 -GGCTAGGAATGTAACCCTAC
* *
847536 GAGCTATGAATGAAACCCTAC
1 G-GCTAGGAATGTAACCCTAC
847557 GG
1 GG
847559 AGATGGCATA
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
20 2 0.05
21 38 0.95
ACGTcount: A:0.33, C:0.23, G:0.25, T:0.19
Consensus pattern (20 bp):
GGCTAGGAATGTAACCCTAC
Found at i:847547 original size:42 final size:42
Alignment explanation
Indices: 847474--847556 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
847464 TAACCTGGCG
* * * *
847474 GGCTAGGCATGTAACCTGGCGGGCTAGGAATGTAACCCTACA
1 GGCTAGGAATGTAACCTGACGAGCTAGGAATGAAACCCTACA
*
847516 GGCTAGGAATGTAACCCT-ACGAGCTATGAATGAAACCCTAC
1 GGCTAGGAATGTAA-CCTGACGAGCTAGGAATGAAACCCTAC
847557 GGAGATGGCA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 32 0.91
43 3 0.09
ACGTcount: A:0.30, C:0.24, G:0.27, T:0.19
Consensus pattern (42 bp):
GGCTAGGAATGTAACCTGACGAGCTAGGAATGAAACCCTACA
Found at i:847636 original size:42 final size:41
Alignment explanation
Indices: 847550--847629 Score: 115
Period size: 42 Copynumber: 1.9 Consensus size: 41
847540 TATGAATGAA
* * *
847550 ACCCTACGGAGATGGCATATGAACTGGTGGGCTTGGCACAT
1 ACCCTACGGAGATGGAATATGAACTGGAGGGCTGGGCACAT
*
847591 ACCCTTACGGAGATGGAATCTGAACTGGAGGGCTGGGCA
1 ACCC-TACGGAGATGGAATATGAACTGGAGGGCTGGGCA
847630 TGTACCCATG
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
41 4 0.12
42 30 0.88
ACGTcount: A:0.25, C:0.21, G:0.34, T:0.20
Consensus pattern (41 bp):
ACCCTACGGAGATGGAATATGAACTGGAGGGCTGGGCACAT
Found at i:848715 original size:25 final size:23
Alignment explanation
Indices: 848671--848720 Score: 55
Period size: 24 Copynumber: 2.1 Consensus size: 23
848661 TAAATTCATG
* *
848671 TAAATTTAAATTAAAAAAAATAA
1 TAAATTTAAAATAAAAAAAAAAA
*
848694 TAAATATTAAAATAAATTAAAAAAA
1 TAAAT-TTAAAATAAA-AAAAAAAA
848719 TA
1 TA
848721 TTACCATATC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 5 0.23
24 9 0.41
25 8 0.36
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (23 bp):
TAAATTTAAAATAAAAAAAAAAA
Found at i:848894 original size:33 final size:30
Alignment explanation
Indices: 848820--848913 Score: 79
Period size: 30 Copynumber: 3.1 Consensus size: 30
848810 TAATTAGCAC
*
848820 AAATAATAATTA-ATTAA-TAAATT--TAAA
1 AAATAATAATTATA-TAATTATATTAATAAA
* *
848847 TAAATACTAATTATATAAATATTATTTTAATAAA
1 -AAATAATAATTATAT--A-ATTATATTAATAAA
*
848881 AAATAATATTTATATAATTATATTAATAAA
1 AAATAATAATTATATAATTATATTAATAAA
848911 AAA
1 AAA
848914 ATATAACAAC
Statistics
Matches: 53, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
28 12 0.23
29 1 0.02
30 17 0.32
31 2 0.04
32 4 0.08
33 13 0.25
34 4 0.08
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (30 bp):
AAATAATAATTATATAATTATATTAATAAA
Found at i:865426 original size:24 final size:24
Alignment explanation
Indices: 865368--865420 Score: 106
Period size: 24 Copynumber: 2.2 Consensus size: 24
865358 TACTAATACG
865368 AAAATGCATCGTTATGCATTAATC
1 AAAATGCATCGTTATGCATTAATC
865392 AAAATGCATCGTTATGCATTAATC
1 AAAATGCATCGTTATGCATTAATC
865416 AAAAT
1 AAAAT
865421 CGATCGATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.42, C:0.15, G:0.11, T:0.32
Consensus pattern (24 bp):
AAAATGCATCGTTATGCATTAATC
Found at i:875979 original size:13 final size:13
Alignment explanation
Indices: 875946--875981 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
875936 TCGGCTCATT
*
875946 CGGCTCAGTCAGG
1 CGGCTCGGTCAGG
875959 CGGCTCGGTCAGG
1 CGGCTCGGTCAGG
*
875972 CGGTTCGGTC
1 CGGCTCGGTC
875982 CAGACCGATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.08, C:0.31, G:0.42, T:0.19
Consensus pattern (13 bp):
CGGCTCGGTCAGG
Found at i:879329 original size:12 final size:12
Alignment explanation
Indices: 879299--879333 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
879289 TATCTTTTAT
879299 TTATCTTGTTT-
1 TTATCTTGTTTC
*
879310 TAATCTTGTTTC
1 TTATCTTGTTTC
879322 TTATCTTGTTTC
1 TTATCTTGTTTC
879334 CAGCACTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.11, C:0.14, G:0.09, T:0.66
Consensus pattern (12 bp):
TTATCTTGTTTC
Found at i:882073 original size:22 final size:22
Alignment explanation
Indices: 882047--882098 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
882037 GCAGCTCATT
* *
882047 CGGCTCGGTCAGCTCAGTCAGG
1 CGGCTCGGTCAGCTCAATCAAG
* * *
882069 TGGCTCTGTCGGCTCAATCAAG
1 CGGCTCGGTCAGCTCAATCAAG
882091 CGGCTCGG
1 CGGCTCGG
882099 ACTAGACCAG
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.13, C:0.31, G:0.35, T:0.21
Consensus pattern (22 bp):
CGGCTCGGTCAGCTCAATCAAG
Found at i:889276 original size:22 final size:23
Alignment explanation
Indices: 889251--889310 Score: 61
Period size: 22 Copynumber: 2.6 Consensus size: 23
889241 GAAAGTAATT
* *
889251 AAAAAATATAAATATTAAAT-CC
1 AAAAAATATAAATAGTAAATGCA
*
889273 AAAAGATATGAAA-AGTAAATGCA
1 AAAAAATAT-AAATAGTAAATGCA
889296 AAAAAAGTATAAATA
1 AAAAAA-TATAAATA
889311 CCAAATTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
22 14 0.47
23 12 0.40
24 4 0.13
ACGTcount: A:0.65, C:0.05, G:0.08, T:0.22
Consensus pattern (23 bp):
AAAAAATATAAATAGTAAATGCA
Found at i:890878 original size:49 final size:49
Alignment explanation
Indices: 890795--890889 Score: 129
Period size: 49 Copynumber: 1.9 Consensus size: 49
890785 TATCTTCACT
* * * *
890795 TGGTTAATTTGCTTTATTGTCTCTTCGTGAAGATCAAATTTGAAAAACA
1 TGGTTAATTTACTTCATCGTCTCTTCGTGAAGATCAAATCTGAAAAACA
*
890844 TGGTTGATTTACTTCATCGTCT-TTCTGTGAAGATCAAATCTGAAAA
1 TGGTTAATTTACTTCATCGTCTCTTC-GTGAAGATCAAATCTGAAAA
890890 GTTGTTGATA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
48 3 0.08
49 37 0.93
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.40
Consensus pattern (49 bp):
TGGTTAATTTACTTCATCGTCTCTTCGTGAAGATCAAATCTGAAAAACA
Found at i:891029 original size:49 final size:49
Alignment explanation
Indices: 890814--891029 Score: 206
Period size: 49 Copynumber: 4.4 Consensus size: 49
890804 TGCTTTATTG
* * * * * *
890814 TCTCTTCGTGAAGATCAAATTTGAAAAACATGGTTGATTTACTTCATCG
1 TCTCTTCGTGAAGATCAAATCTAAAAAACTTGGTTGATTTGCTTCCTCA
* * * * *
890863 TCT-TTCTGTGAAGATCAAATCT-GAAAAGTT-GTTGATATGCGTCGTCA
1 TCTCTTC-GTGAAGATCAAATCTAAAAAACTTGGTTGATTTGCTTCCTCA
** * * * *
890910 TCTCTTAATAAAGGTTAAATCTAAAAAACTTGATTGATTTGCTTCCTCA
1 TCTCTTCGTGAAGATCAAATCTAAAAAACTTGGTTGATTTGCTTCCTCA
*
890959 TCTCTTCATGAATG-TCAAATCTAAAAAACTTGGTTGATTTGCTTCCTCA
1 TCTCTTCGTGAA-GATCAAATCTAAAAAACTTGGTTGATTTGCTTCCTCA
* *
891008 TTTCTTCGTGAAGATCCAATCT
1 TCTCTTCGTGAAGATCAAATCT
891030 GGAAACTTTG
Statistics
Matches: 134, Mismatches: 27, Indels: 12
0.77 0.16 0.07
Matches are distributed among these distances:
47 26 0.19
48 17 0.13
49 90 0.67
50 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.38
Consensus pattern (49 bp):
TCTCTTCGTGAAGATCAAATCTAAAAAACTTGGTTGATTTGCTTCCTCA
Found at i:891108 original size:49 final size:47
Alignment explanation
Indices: 891032--891137 Score: 122
Period size: 49 Copynumber: 2.2 Consensus size: 47
891022 TCCAATCTGG
* * *
891032 AAACTTTGATGATTTACCCCACAATCTTTTATTGGAGATCAAATATGAA
1 AAACTTTGATGATTTACACCACAATC-TTTAATGGAGACCAAATAT-AA
** * * *
891081 AAACTTTGATGATTTACATTACCATCTTTAATGGCGACCAAATCTAA
1 AAACTTTGATGATTTACACCACAATCTTTAATGGAGACCAAATATAA
891128 AAACTTTGAT
1 AAACTTTGAT
891138 AATTCGCTCC
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
47 12 0.24
48 15 0.31
49 22 0.45
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.35
Consensus pattern (47 bp):
AAACTTTGATGATTTACACCACAATCTTTAATGGAGACCAAATATAA
Found at i:891184 original size:48 final size:48
Alignment explanation
Indices: 891032--891330 Score: 203
Period size: 48 Copynumber: 6.2 Consensus size: 48
891022 TCCAATCTGG
** * * *
891032 AAACTTTGATGATTTACCCCACAATCT-TTTATTGGAGATCAAATATGAA
1 AAACTTTGATGATTCGCTCCACCATCTCTTCA-TGGAGATCAAATATG-A
** * * * * * *
891081 AAACTTTGATGATTTACAT-TACCATCT-TTAATGGCGACCAAATCTAA
1 AAACTTTGATGATTCGC-TCCACCATCTCTTCATGGAGATCAAATATGA
* * * * *
891128 AAACTTTGATAATTCGCTCCACCATTTCTTCGTGGAGATCAAATCTGG
1 AAACTTTGATGATTCGCTCCACCATCTCTTCATGGAGATCAAATATGA
* * ** *
891176 AAGCTTTGACGATTTTCCCCACCATCTCTTTGCAT--AGATCAAATATGA
1 AAACTTTGATGATTCGCTCCACCATCTC-TT-CATGGAGATCAAATATGA
* * * *
891224 AAACATTGATGATTCGTTCCATCATCTCTTCATGGAAATCAAATATGAA
1 AAACTTTGATGATTCGCTCCACCATCTCTTCATGGAGATCAAATATG-A
* * * * * *
891273 AAACCTTGATGATTCGCTCCATCACCTCTTCATGGAGACCAAATTTGG
1 AAACTTTGATGATTCGCTCCACCATCTCTTCATGGAGATCAAATATGA
*
891321 AAGCTTTGAT
1 AAACTTTGAT
891331 AATTTATCCC
Statistics
Matches: 195, Mismatches: 47, Indels: 17
0.75 0.18 0.07
Matches are distributed among these distances:
46 4 0.02
47 23 0.12
48 96 0.49
49 70 0.36
50 2 0.01
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.33
Consensus pattern (48 bp):
AAACTTTGATGATTCGCTCCACCATCTCTTCATGGAGATCAAATATGA
Found at i:891295 original size:49 final size:48
Alignment explanation
Indices: 891213--891308 Score: 156
Period size: 49 Copynumber: 2.0 Consensus size: 48
891203 CTTTGCATAG
* *
891213 ATCAAATATGAAAACATTGATGATTCGTTCCATCATCTCTTCATGGAA
1 ATCAAATATGAAAACATTGATGATTCGCTCCATCACCTCTTCATGGAA
*
891261 ATCAAATATGAAAAACCTTGATGATTCGCTCCATCACCTCTTCATGGA
1 ATCAAATATG-AAAACATTGATGATTCGCTCCATCACCTCTTCATGGA
891309 GACCAAATTT
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
48 10 0.23
49 34 0.77
ACGTcount: A:0.34, C:0.22, G:0.12, T:0.31
Consensus pattern (48 bp):
ATCAAATATGAAAACATTGATGATTCGCTCCATCACCTCTTCATGGAA
Found at i:896258 original size:28 final size:29
Alignment explanation
Indices: 896216--896274 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
896206 TAATAATGCG
896216 AACATTATATTTATTTT-AAAAACCATAT
1 AACATTATATTTATTTTCAAAAACCATAT
*
896244 AACA-TATATTATATTTTCAAAAACTATAT
1 AACATTATATT-TATTTTCAAAAACCATAT
896273 AA
1 AA
896275 TATGTTTTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 6 0.21
28 10 0.36
29 12 0.43
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (29 bp):
AACATTATATTTATTTTCAAAAACCATAT
Found at i:896273 original size:22 final size:22
Alignment explanation
Indices: 896247--896296 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
896237 ACCATATAAC
896247 ATATATTATATTTTCAAAAACT
1 ATATATTATATTTTCAAAAACT
* * *
896269 ATATAATATGTTTTCAAAAATT
1 ATATATTATATTTTCAAAAACT
896291 ATATAT
1 ATATAT
896297 ATTATATATG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (22 bp):
ATATATTATATTTTCAAAAACT
Found at i:896382 original size:17 final size:17
Alignment explanation
Indices: 896357--896393 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
896347 TTTCAAAACT
896357 AAATAATATATTTTCAA
1 AAATAATATATTTTCAA
*
896374 AAATTATATATTTTCAA
1 AAATAATATATTTTCAA
896391 AAA
1 AAA
896394 CCATATATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (17 bp):
AAATAATATATTTTCAA
Found at i:896399 original size:17 final size:17
Alignment explanation
Indices: 896362--896402 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
896352 AAACTAAATA
**
896362 ATATATTTTCAAAAATT
1 ATATATTTTCAAAAACC
896379 ATATATTTTCAAAAACC
1 ATATATTTTCAAAAACC
896396 ATATATT
1 ATATATT
896403 ATATACATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.46, C:0.10, G:0.00, T:0.44
Consensus pattern (17 bp):
ATATATTTTCAAAAACC
Found at i:897535 original size:42 final size:41
Alignment explanation
Indices: 897488--897578 Score: 103
Period size: 42 Copynumber: 2.2 Consensus size: 41
897478 TTTAAACAAG
*
897488 GTGAGATGCTCTTCG-GACGACTCCCCTTCTCGAGAAAGCCAT
1 GTGAGATGCTCTTCGAGA--ACTCCCCTTCTCGAGAAAGCCAA
* * * *
897530 GTGAGATGTTCTTCGAGTAACTCCTCTTTTCGAGAAAGGCAA
1 GTGAGATGCTCTTCGAG-AACTCCCCTTCTCGAGAAAGCCAA
897572 GTGAGAT
1 GTGAGAT
897579 ATTCTGTCAC
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
42 40 0.95
43 1 0.02
44 1 0.02
ACGTcount: A:0.24, C:0.23, G:0.25, T:0.27
Consensus pattern (41 bp):
GTGAGATGCTCTTCGAGAACTCCCCTTCTCGAGAAAGCCAA
Found at i:899132 original size:5 final size:5
Alignment explanation
Indices: 899118--899242 Score: 97
Period size: 5 Copynumber: 25.8 Consensus size: 5
899108 GGGTTTCTTT
* * *
899118 TTATA CTATA TTATA TATATA TTATT TTATA -TAGTA -TATA TTATA TAATA
1 TTATA TTATA TTATA T-TATA TTATA TTATA TTA-TA TTATA TTATA TTATA
*
899168 -TATA TT-T- TTATA TTAT- TTATA ATATTA TT-TA TTAGTA -TATA TT-TA
1 TTATA TTATA TTATA TTATA TTATA TTA-TA TTATA TTA-TA TTATA TTATA
*
899213 TTATA TTATA TTATA TTATTA TAATA TTAT
1 TTATA TTATA TTATA TTA-TA TTATA TTAT
899243 TTTGTTTGTT
Statistics
Matches: 97, Mismatches: 10, Indels: 26
0.73 0.08 0.20
Matches are distributed among these distances:
3 2 0.02
4 23 0.24
5 58 0.60
6 14 0.14
ACGTcount: A:0.39, C:0.01, G:0.02, T:0.58
Consensus pattern (5 bp):
TTATA
Found at i:899143 original size:14 final size:14
Alignment explanation
Indices: 899126--899226 Score: 81
Period size: 14 Copynumber: 7.2 Consensus size: 14
899116 TTTTATACTA
899126 TATTATATATATAT
1 TATTATATATATAT
*
899140 TATTTTATATAGTAT
1 TATTATATATA-TAT
899155 ATATTATATA-ATAT
1 -TATTATATATATAT
899169 ATATT-T-T-TATAT
1 -TATTATATATATAT
899181 TATT-TATA-ATAT
1 TATTATATATATAT
899193 TATTTATTAGTATATATT
1 TA-TTA-TA-TATATA-T
899211 TATTATAT-TATAT
1 TATTATATATATAT
899224 TAT
1 TAT
899227 ATTATTATAA
Statistics
Matches: 74, Mismatches: 2, Indels: 23
0.75 0.02 0.23
Matches are distributed among these distances:
11 5 0.07
12 12 0.16
13 7 0.09
14 22 0.30
15 7 0.09
16 12 0.16
17 6 0.08
18 3 0.04
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (14 bp):
TATTATATATATAT
Found at i:899148 original size:21 final size:20
Alignment explanation
Indices: 899124--899245 Score: 90
Period size: 19 Copynumber: 6.0 Consensus size: 20
899114 CTTTTTATAC
899124 TATATTATATATATATTATTT
1 TATATTAT-TATATATTATTT
* *
899145 TATA-TAGTATATATTATAT
1 TATATTATTATATATTATTT
* *
899164 AATATATATTTTTATATTA-TT
1 TATAT-TA-TTATATATTATTT
* * * *
899185 TATAATATTATTTATTAGTA
1 TATATTATTATATATTATTT
*
899205 TATA-T-TTATTATATTATAT
1 TATATTATTA-TATATTATTT
899224 TATATTATTATAATATTATTT
1 TATATTATTAT-ATATTATTT
899245 T
1 T
899246 GTTTGTTTTA
Statistics
Matches: 77, Mismatches: 16, Indels: 16
0.71 0.15 0.15
Matches are distributed among these distances:
18 3 0.04
19 33 0.43
20 11 0.14
21 22 0.29
22 8 0.10
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.60
Consensus pattern (20 bp):
TATATTATTATATATTATTT
Found at i:899162 original size:26 final size:26
Alignment explanation
Indices: 899115--899242 Score: 88
Period size: 26 Copynumber: 4.8 Consensus size: 26
899105 TTTGGGTTTC
*
899115 TTTT-TATACTATATTATATATATATTA
1 TTTTATATAGTATA-TAT-TATATATTA
899142 TTTTATATAGTATATATTATATAATATA
1 TTTTATATAGTATATATTATAT-AT-TA
*
899170 TATTTTTATA-T-TAT-TTATAATATTA
1 T-TTTATATAGTATATATTAT-ATATTA
899195 -TTTAT-TAGTATATATTTATTATATTA
1 TTTTATATAGTATATA-TTA-TATATTA
* *
899221 TATTATATTATTATAATATTAT
1 TTTTATA-TAGTAT-ATATTAT
899243 TTTGTTTGTT
Statistics
Matches: 82, Mismatches: 5, Indels: 27
0.72 0.04 0.24
Matches are distributed among these distances:
22 2 0.02
23 5 0.06
24 3 0.04
25 2 0.02
26 20 0.24
27 19 0.23
28 13 0.16
29 15 0.18
30 3 0.04
ACGTcount: A:0.38, C:0.01, G:0.02, T:0.59
Consensus pattern (26 bp):
TTTTATATAGTATATATTATATATTA
Found at i:899181 original size:8 final size:9
Alignment explanation
Indices: 899124--899244 Score: 65
Period size: 9 Copynumber: 13.1 Consensus size: 9
899114 CTTTTTATAC
899124 TATATTATAT
1 TATATTAT-T
899134 ATATATTATT
1 -TATATTATT
*
899144 T-TA-TATAG
1 TATATTAT-T
899152 TATA-TA-T
1 TATATTATT
* *
899159 TATATAATA
1 TATATTATT
899168 TATATT-TT
1 TATATTATT
899176 TATATTATT
1 TATATTATT
*
899185 TATAATATT
1 TATATTATT
* *
899194 ATTTATTAGTA
1 -TATATTA-TT
899205 TATATT-TAT
1 TATATTAT-T
899214 TATATTATAT
1 TATATTAT-T
899224 TATATTATT
1 TATATTATT
899233 ATAATATTATT
1 -T-ATATTATT
899244 T
1 T
899245 TGTTTGTTTT
Statistics
Matches: 87, Mismatches: 12, Indels: 23
0.71 0.10 0.19
Matches are distributed among these distances:
7 7 0.08
8 12 0.14
9 27 0.31
10 24 0.28
11 17 0.20
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.60
Consensus pattern (9 bp):
TATATTATT
Found at i:899185 original size:41 final size:42
Alignment explanation
Indices: 899124--899241 Score: 126
Period size: 37 Copynumber: 2.9 Consensus size: 42
899114 CTTTTTATAC
899124 TATATTATATATATATTATTTTATATAGTATATATTATA-TAATA
1 TATATT-TAT-TATATTATTTTATATA-TATATATTATATTAATA
*
899168 TATATTT-TTATATTA-TTTATA-ATAT-TATT-TATTAGTA
1 TATATTTATTATATTATTTTATATATATATATTATATTAATA
* *
899205 TATATTTATTATATTATATTATAT-TAT-TATAATATTA
1 TATATTTATTATATTATTTTATATATATATATTATATTA
899242 TTTTGTTTGT
Statistics
Matches: 66, Mismatches: 3, Indels: 14
0.80 0.04 0.17
Matches are distributed among these distances:
36 2 0.03
37 15 0.23
38 11 0.17
39 12 0.18
40 11 0.17
41 7 0.11
42 1 0.02
43 1 0.02
44 6 0.09
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (42 bp):
TATATTTATTATATTATTTTATATATATATATTATATTAATA
Found at i:899242 original size:29 final size:30
Alignment explanation
Indices: 899124--899243 Score: 124
Period size: 29 Copynumber: 4.0 Consensus size: 30
899114 CTTTTTATAC
* *
899124 TATATTATATATATATTATTTTATATAGTA-
1 TATATTATAT-TATATTATTATATATATTAT
* *
899154 TATATTATATAATATATATT-TTTATATTAT
1 TATATTATATTATAT-TATTATATATATTAT
*
899184 T-TATAATATTAT-TTATTAGTATATATTTAT
1 TATATTATATTATATTATTA-TATATA-TTAT
899214 TATATTATATTATATTATTATA-ATATTAT
1 TATATTATATTATATTATTATATATATTAT
899243 T
1 T
899244 TTGTTTGTTT
Statistics
Matches: 76, Mismatches: 7, Indels: 15
0.78 0.07 0.15
Matches are distributed among these distances:
27 4 0.05
28 1 0.01
29 30 0.39
30 23 0.30
31 12 0.16
32 6 0.08
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (30 bp):
TATATTATATTATATTATTATATATATTAT
Found at i:899243 original size:14 final size:14
Alignment explanation
Indices: 899126--899243 Score: 65
Period size: 14 Copynumber: 8.3 Consensus size: 14
899116 TTTTATACTA
899126 TATTA-TATATATAT
1 TATTATTATA-ATAT
899140 TATT-TTATATAGTAT
1 TATTATTATA-A-TAT
899155 ATATTA-TATAATAT
1 -TATTATTATAATAT
899169 ATATT-TT-T-ATAT
1 -TATTATTATAATAT
899181 TA-T-TTATAATAT
1 TATTATTATAATAT
899193 TATTTATTAGTATATATT
1 TA-TTATTA-TA-ATA-T
*
899211 TATTA-TATTATATT
1 TATTATTATAATA-T
899225 ATATTATTATAATAT
1 -TATTATTATAATAT
899240 TATT
1 TATT
899244 TTGTTTGTTT
Statistics
Matches: 87, Mismatches: 2, Indels: 30
0.73 0.02 0.25
Matches are distributed among these distances:
10 3 0.03
11 3 0.03
12 10 0.11
13 1 0.01
14 29 0.33
15 14 0.16
16 18 0.21
17 6 0.07
18 3 0.03
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (14 bp):
TATTATTATAATAT
Found at i:901550 original size:17 final size:17
Alignment explanation
Indices: 901528--901563 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
901518 TTTTACTAAC
901528 TTGTTTCCTTTCATTTT
1 TTGTTTCCTTTCATTTT
**
901545 TTGTTTTGTTTCATTTT
1 TTGTTTCCTTTCATTTT
901562 TT
1 TT
901564 TCATTTGTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.06, C:0.11, G:0.08, T:0.75
Consensus pattern (17 bp):
TTGTTTCCTTTCATTTT
Found at i:901564 original size:18 final size:18
Alignment explanation
Indices: 901536--901578 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
901526 ACTTGTTTCC
901536 TTTCATTTTTTGT--TTTG
1 TTTCATTTTTT-TCATTTG
901553 TTTCATTTTTTTCATTTG
1 TTTCATTTTTTTCATTTG
*
901571 TATCATTT
1 TTTCATTT
901579 AAAGAGGTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 1 0.04
17 11 0.48
18 11 0.48
ACGTcount: A:0.12, C:0.09, G:0.07, T:0.72
Consensus pattern (18 bp):
TTTCATTTTTTTCATTTG
Found at i:908299 original size:2 final size:2
Alignment explanation
Indices: 908292--908324 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
908282 TTTGTAATGA
908292 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
908325 AGTAGATTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:914729 original size:469 final size:469
Alignment explanation
Indices: 913851--915262 Score: 2774
Period size: 469 Copynumber: 3.0 Consensus size: 469
913841 AAGTGGTTTC
913851 ATATTTCGTACATGCTTTAACTAAAATTGAATACATTGAATCATAGAAGGAAAAAATTCAATGAA
1 ATATTTCGTACATGCTTTAACTAAAATTGAATACATTGAATCATAGAAGGAAAAAATTCAATGAA
913916 GCATTCAAGTCATTCATCCATCCACCAAGTGCATTGGACAACAGCCATATTCATGTATAGCGTTC
66 GCATTCAAGTCATTCATCCATCCACCAAGTGCATTGGACAACAGCCATATTCATGTATAGCGTTC
913981 CTACAAGTTGGTTGACCAAGGGGTGTTTTGAGCTTTTTGAACATTCAAGGGACATATTTAATCAT
131 CTACAAGTTGGTTGACCAAGGGGTGTTTTGAGCTTTTTGAACATTCAAGGGACATATTTAATCAT
914046 CTATGGGGAACATTGAAGAGATTCAAAGTTCATTCATCTTACAATTCATTCACCAATCTAATTCA
196 CTATGGGGAACATTGAAGAGATTCAAAGTTCATTCATCTTACAATTCATTCACCAATCTAATTCA
914111 TATATTAGAGGCATATAAACAACATTGAAATTCATGAAAACTTGGAGAATTCATTAATCAATCAA
261 TATATTAGAGGCATATAAACAACATTGAAATTCATGAAAACTTGGAGAATTCATTAATCAATCAA
914176 ATGCATGAATTAAGGACATGTACCAAGCAATTAAAACCAAAAGTTCATTCATTCATATTTGTAAA
326 ATGCATGAATTAAGGACATGTACCAAGCAATTAAAACCAAAAGTTCATTCATTCATATTTGTAAA
914241 GCTCACGATCTGTCATCCTTAGGAGAATGCACCCAAATGAATTTATTTTATTCATGTATTTGGAT
391 GCTCACGATCTGTCATCCTTAGGAGAATGCACCCAAATGAATTTATTTTATTCATGTATTTGGAT
914306 TAATCATTTCCTTT
456 TAATCATTTCCTTT
914320 ATATTTCGTACATGCTTTAACTAAAATTGAATACATTGAATCATAGAAGGAAAAAATTCAATGAA
1 ATATTTCGTACATGCTTTAACTAAAATTGAATACATTGAATCATAGAAGGAAAAAATTCAATGAA
914385 GCATTCAAGTCATTCATCCATCCACCAAGTGCATTGGACAACAGCCATATTCATGTATAGCGTTC
66 GCATTCAAGTCATTCATCCATCCACCAAGTGCATTGGACAACAGCCATATTCATGTATAGCGTTC
*
914450 CTACAAGTTGGTTGACCAAAGGGTGTTTTGAGCTTTTTGAACATTCAAGGGACATATTTAATCAT
131 CTACAAGTTGGTTGACCAAGGGGTGTTTTGAGCTTTTTGAACATTCAAGGGACATATTTAATCAT
*
914515 CTATGGGGAACATTGAAGAGATTCAAAGTTCATTCATCTTACAATTCATTCACCAATCTGATTCA
196 CTATGGGGAACATTGAAGAGATTCAAAGTTCATTCATCTTACAATTCATTCACCAATCTAATTCA
914580 TATATTAGAGGCATATAAACAACATTGAAATTCATGAAAACTTGGAGAATTCATTAATCAATCAA
261 TATATTAGAGGCATATAAACAACATTGAAATTCATGAAAACTTGGAGAATTCATTAATCAATCAA
914645 ATGCATGAATTAAGGACATGTACCAAGCAATTAAAACCAAAAGTTCATTCATTCATATTTGTAAA
326 ATGCATGAATTAAGGACATGTACCAAGCAATTAAAACCAAAAGTTCATTCATTCATATTTGTAAA
914710 GCTCACGATCTGTCATCCTTAGGAGAATGCACCCAAATGAATTTATTTTATTCATGTATTTGGAT
391 GCTCACGATCTGTCATCCTTAGGAGAATGCACCCAAATGAATTTATTTTATTCATGTATTTGGAT
914775 TAATCATTTCCTTT
456 TAATCATTTCCTTT
**
914789 ATATTTCGTACATGCTTTAACTAGTATTGAATACATTGAATCATAGAAGGAAAAAATTCAATGAA
1 ATATTTCGTACATGCTTTAACTAAAATTGAATACATTGAATCATAGAAGGAAAAAATTCAATGAA
914854 GCATTCAAGTCATTCATCCATCCACCAAGTGCATTGGACAACAGCCATATTCATGTATAGCGTTC
66 GCATTCAAGTCATTCATCCATCCACCAAGTGCATTGGACAACAGCCATATTCATGTATAGCGTTC
914919 CTACAAGTTGGTTGACCAAGGGGTGTTTTGAGCTTTTTGAACATTCAAGGGACATATTTAATCAT
131 CTACAAGTTGGTTGACCAAGGGGTGTTTTGAGCTTTTTGAACATTCAAGGGACATATTTAATCAT
914984 CTATGGGGAACATTGAAGAGATTCAAAGTTCATTCATCTTACAATTCATTCACCAATCTAATTCA
196 CTATGGGGAACATTGAAGAGATTCAAAGTTCATTCATCTTACAATTCATTCACCAATCTAATTCA
915049 TATATTAGAGGCATATAAACAACATTGAAATTCATGAAAACTTGGAG-ATTCATTAATCAATCAA
261 TATATTAGAGGCATATAAACAACATTGAAATTCATGAAAACTTGGAGAATTCATTAATCAATCAA
915113 ATGCATGAATTAAGGACATGTACCAAGCAATTAAAACCAAAAGTTCATTCATTCATATTTGTAAA
326 ATGCATGAATTAAGGACATGTACCAAGCAATTAAAACCAAAAGTTCATTCATTCATATTTGTAAA
915178 GCTCACGATCTGTCATCCTTAGGAGAATGCACCCAAATGAATTTATTTTATTCATGTATTTGGAT
391 GCTCACGATCTGTCATCCTTAGGAGAATGCACCCAAATGAATTTATTTTATTCATGTATTTGGAT
915243 TAATCATTTCCTTT
456 TAATCATTTCCTTT
915257 AT-TTTC
1 ATATTTC
915263 AATCATCTAT
Statistics
Matches: 937, Mismatches: 6, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
467 4 0.00
468 163 0.17
469 770 0.82
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.33
Consensus pattern (469 bp):
ATATTTCGTACATGCTTTAACTAAAATTGAATACATTGAATCATAGAAGGAAAAAATTCAATGAA
GCATTCAAGTCATTCATCCATCCACCAAGTGCATTGGACAACAGCCATATTCATGTATAGCGTTC
CTACAAGTTGGTTGACCAAGGGGTGTTTTGAGCTTTTTGAACATTCAAGGGACATATTTAATCAT
CTATGGGGAACATTGAAGAGATTCAAAGTTCATTCATCTTACAATTCATTCACCAATCTAATTCA
TATATTAGAGGCATATAAACAACATTGAAATTCATGAAAACTTGGAGAATTCATTAATCAATCAA
ATGCATGAATTAAGGACATGTACCAAGCAATTAAAACCAAAAGTTCATTCATTCATATTTGTAAA
GCTCACGATCTGTCATCCTTAGGAGAATGCACCCAAATGAATTTATTTTATTCATGTATTTGGAT
TAATCATTTCCTTT
Found at i:919606 original size:17 final size:17
Alignment explanation
Indices: 919584--919619 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
919574 ATGCTTTTCA
919584 TAGGTGCAAGGCTAAGG
1 TAGGTGCAAGGCTAAGG
919601 TAGGTGCAAGGCTAAGG
1 TAGGTGCAAGGCTAAGG
919618 TA
1 TA
919620 TGGAAGCTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.31, C:0.11, G:0.39, T:0.19
Consensus pattern (17 bp):
TAGGTGCAAGGCTAAGG
Found at i:920128 original size:34 final size:33
Alignment explanation
Indices: 920066--920130 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
920056 ACCATTCGAC
*
920066 CAAGCATTCATCAAGTCTCTAGCCGAACCAAAA
1 CAAGCATTCATCAAGCCTCTAGCCGAACCAAAA
* **
920099 CAAGCATTCATTAAGCCTTCTAGTGGAACCAA
1 CAAGCATTCATCAAGCC-TCTAGCCGAACCAA
920131 CATCACCATT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
33 15 0.56
34 12 0.44
ACGTcount: A:0.37, C:0.28, G:0.14, T:0.22
Consensus pattern (33 bp):
CAAGCATTCATCAAGCCTCTAGCCGAACCAAAA
Found at i:923373 original size:30 final size:29
Alignment explanation
Indices: 923300--923373 Score: 78
Period size: 30 Copynumber: 2.5 Consensus size: 29
923290 ATTTTATTAA
* ** *
923300 TATATGAATGTGTTCTATGTGAAAGTGCT
1 TATATGAAAGTGTTCTACATGAAAATGCT
923329 T-TATGTAAATGTGTTCTACATGAAAATGCT
1 TATATG-AAA-GTGTTCTACATGAAAATGCT
923359 CTATATGAAAGTGTT
1 -TATATGAAAGTGTT
923374 TTATGTTGAT
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
28 4 0.11
29 3 0.08
30 22 0.59
31 4 0.11
32 4 0.11
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (29 bp):
TATATGAAAGTGTTCTACATGAAAATGCT
Found at i:930232 original size:30 final size:31
Alignment explanation
Indices: 930192--930272 Score: 98
Period size: 30 Copynumber: 2.7 Consensus size: 31
930182 ATTTTATTAA
*
930192 TATATG-AATGTGTTCTATGTGAAAGTGCT-
1 TATATGAAATGTGTTCTATGTGAAAATGCTC
**
930221 T-TATGTAAATGTGTTCTACATGAAAATGCTC
1 TATATG-AAATGTGTTCTATGTGAAAATGCTC
930252 TATATGAAA-GTGTTCTATGTG
1 TATATGAAATGTGTTCTATGTG
930273 GATAAAAGAC
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
28 4 0.09
29 1 0.02
30 30 0.70
31 4 0.09
32 4 0.09
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.41
Consensus pattern (31 bp):
TATATGAAATGTGTTCTATGTGAAAATGCTC
Found at i:930268 original size:15 final size:15
Alignment explanation
Indices: 930192--930269 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
930182 ATTTTATTAA
*
930192 TATATGAATGTGTTC
1 TATATGAAAGTGTTC
*
930207 TATGTGAAAGTG--C
1 TATATGAAAGTGTTC
*
930220 TTTATGTAAATGTGTTC
1 TATATG-AAA-GTGTTC
* * *
930237 TACATGAAAATGCTC
1 TATATGAAAGTGTTC
930252 TATATGAAAGTGTTC
1 TATATGAAAGTGTTC
930267 TAT
1 TAT
930270 GTGGATAAAA
Statistics
Matches: 48, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
13 5 0.10
14 3 0.06
15 32 0.67
16 3 0.06
17 5 0.10
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (15 bp):
TATATGAAAGTGTTC
Found at i:930409 original size:23 final size:23
Alignment explanation
Indices: 930391--930462 Score: 74
Period size: 23 Copynumber: 3.1 Consensus size: 23
930381 GCGGTCTTTT
930391 GGAACAATTCTATGTGGTCATTC
1 GGAACAATTCTATGTGGTCATTC
* * *
930414 GGAACAAATTCTACGCGGTCCTTC
1 GGAAC-AATTCTATGTGGTCATTC
* *
930438 GGGACAAATCTATGTGG-CACTTC
1 GGAACAATTCTATGTGGTCA-TTC
930461 GG
1 GG
930463 TGCATATTCT
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
22 1 0.03
23 19 0.49
24 19 0.49
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (23 bp):
GGAACAATTCTATGTGGTCATTC
Found at i:930433 original size:24 final size:24
Alignment explanation
Indices: 930375--930446 Score: 83
Period size: 24 Copynumber: 3.0 Consensus size: 24
930365 GAGTCGAGGG
* *
930375 TTCTACGCGGTCTTTTGGAAC-AA
1 TTCTACGCGGTCATTCGGAACAAA
* *
930398 TTCTATGTGGTCATTCGGAACAAA
1 TTCTACGCGGTCATTCGGAACAAA
* *
930422 TTCTACGCGGTCCTTCGGGACAAA
1 TTCTACGCGGTCATTCGGAACAAA
930446 T
1 T
930447 CTATGTGGCA
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
23 17 0.43
24 23 0.57
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.32
Consensus pattern (24 bp):
TTCTACGCGGTCATTCGGAACAAA
Found at i:930450 original size:47 final size:47
Alignment explanation
Indices: 930375--930485 Score: 125
Period size: 47 Copynumber: 2.4 Consensus size: 47
930365 GAGTCGAGGG
* * *
930375 TTCTACGCGGTCTTTTGGAACAATTCTATGTGGTCA-TTCGGAACAAA
1 TTCTACGCGGTCCTTCGGAACAAATCTATGTGG-CACTTCGGAACAAA
* ** *
930422 TTCTACGCGGTCCTTCGGGACAAATCTATGTGGCACTTCGGTGCATA
1 TTCTACGCGGTCCTTCGGAACAAATCTATGTGGCACTTCGGAACAAA
* *
930469 TTCTACGTGGTACTTCG
1 TTCTACGCGGTCCTTCG
930486 TTGCAATTTA
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
46 2 0.04
47 52 0.96
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.33
Consensus pattern (47 bp):
TTCTACGCGGTCCTTCGGAACAAATCTATGTGGCACTTCGGAACAAA
Found at i:935060 original size:12 final size:13
Alignment explanation
Indices: 935046--935115 Score: 72
Period size: 14 Copynumber: 5.2 Consensus size: 13
935036 TTTTTTCATA
935046 ATTATAATTATA-
1 ATTATAATTATAT
935058 ATTATATATTATAT
1 ATTATA-ATTATAT
935072 ATTAT-ATTATAT
1 ATTATAATTATAT
*
935084 ATATATTATTATAT
1 AT-TATAATTATAT
935098 ATATATATATATATAT
1 AT-TATA-AT-TATAT
935114 AT
1 AT
935116 ATTACAAATT
Statistics
Matches: 51, Mismatches: 1, Indels: 8
0.85 0.02 0.13
Matches are distributed among these distances:
12 15 0.29
13 9 0.18
14 18 0.35
15 2 0.04
16 7 0.14
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
ATTATAATTATAT
Found at i:935072 original size:2 final size:2
Alignment explanation
Indices: 935060--935117 Score: 81
Period size: 2 Copynumber: 31.5 Consensus size: 2
935050 TAATTATAAT
935060 TA TA TA T- TA TA TA T- TA TA T- TA TA TA TA TA T- TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
935097 TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
935118 TACAAATTAC
Statistics
Matches: 51, Mismatches: 0, Indels: 10
0.84 0.00 0.16
Matches are distributed among these distances:
1 5 0.10
2 46 0.90
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:935075 original size:14 final size:14
Alignment explanation
Indices: 935046--935119 Score: 84
Period size: 16 Copynumber: 5.3 Consensus size: 14
935036 TTTTTTCATA
935046 ATTATA-ATTATA-
1 ATTATATATTATAT
935058 ATTATATATTATAT
1 ATTATATATTATAT
935072 ATTATATTATATATAT
1 ATTATA-TAT-TATAT
935088 ATTAT-TA-TATAT
1 ATTATATATTATAT
935100 ATATATATATATATAT
1 AT-TATATAT-TATAT
935116 ATTA
1 ATTA
935120 CAAATTACAT
Statistics
Matches: 54, Mismatches: 0, Indels: 13
0.81 0.00 0.19
Matches are distributed among these distances:
12 13 0.24
13 9 0.17
14 10 0.19
15 5 0.09
16 17 0.31
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
ATTATATATTATAT
Found at i:936397 original size:15 final size:15
Alignment explanation
Indices: 936377--936406 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
936367 GGAGCTTTTA
936377 ATTTTAATAATTGAT
1 ATTTTAATAATTGAT
*
936392 ATTTTAATCATTGAT
1 ATTTTAATAATTGAT
936407 TAAAAATTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.03, G:0.07, T:0.53
Consensus pattern (15 bp):
ATTTTAATAATTGAT
Found at i:936593 original size:2 final size:2
Alignment explanation
Indices: 936586--936612 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
936576 TAATTTTTAT
936586 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 T
936613 TGGTTTAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:937527 original size:28 final size:26
Alignment explanation
Indices: 937485--937565 Score: 73
Period size: 28 Copynumber: 3.2 Consensus size: 26
937475 TAATTCTTTC
* *
937485 TTTTCAAAATGTTTATATATAATTATTA
1 TTTTCATAATATTTATATAT-A-TATTA
*
937513 TTTTCATAATATTTATATGTATATTA
1 TTTTCATAATATTTATATATATATTA
*
937539 TTTT-TTAATATTT-T-TAT-T-TTA
1 TTTTCATAATATTTATATATATATTA
937560 TTTTCA
1 TTTTCA
937566 AGTATTAAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
21 7 0.15
22 1 0.02
23 2 0.04
24 1 0.02
25 8 0.17
26 9 0.20
27 1 0.02
28 17 0.37
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (26 bp):
TTTTCATAATATTTATATATATATTA
Found at i:937537 original size:26 final size:28
Alignment explanation
Indices: 937485--937551 Score: 77
Period size: 28 Copynumber: 2.5 Consensus size: 28
937475 TAATTCTTTC
* *
937485 TTTTCAAAATGTTTATATATAATTATTA
1 TTTTCATAATATTTATATATAATTATTA
*
937513 TTTTCATAATATTTATATGT-A-TATTA
1 TTTTCATAATATTTATATATAATTATTA
*
937539 TTTT-TTAATATTT
1 TTTTCATAATATTT
937552 TTATTTTATT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
25 8 0.23
26 9 0.26
27 1 0.03
28 17 0.49
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.60
Consensus pattern (28 bp):
TTTTCATAATATTTATATATAATTATTA
Found at i:942197 original size:2 final size:2
Alignment explanation
Indices: 942190--942219 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
942180 TTATCCTTTA
942190 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
942220 CCTTTGTTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:942529 original size:7 final size:7
Alignment explanation
Indices: 942517--942568 Score: 52
Period size: 7 Copynumber: 7.4 Consensus size: 7
942507 TCCAGCAAAG
942517 AAAGAAA
1 AAAGAAA
942524 AAAGAAA
1 AAAGAAA
942531 AAAGAAA
1 AAAGAAA
942538 AAA-AAA
1 AAAGAAA
*
942544 AGAAAAAA
1 A-AAGAAA
* *
942552 AAACACA
1 AAAGAAA
*
942559 AAGGAAA
1 AAAGAAA
942566 AAA
1 AAA
942569 AGGAAAATTG
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
6 4 0.11
7 29 0.78
8 4 0.11
ACGTcount: A:0.85, C:0.04, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAGAAA
Found at i:942529 original size:11 final size:11
Alignment explanation
Indices: 942513--942554 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
942503 CTCATCCAGC
942513 AAAGAAAGAAA-
1 AAAGAAA-AAAG
942524 AAAGAAAAAAG
1 AAAGAAAAAAG
*
942535 AAAAAAAAAAG
1 AAAGAAAAAAG
942546 AAA-AAAAAA
1 AAAGAAAAAA
942555 CACAAAGGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
10 9 0.31
11 20 0.69
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (11 bp):
AAAGAAAAAAG
Found at i:942536 original size:18 final size:18
Alignment explanation
Indices: 942513--942551 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
942503 CTCATCCAGC
*
942513 AAAGAAAGAAAAAAGAAA
1 AAAGAAAAAAAAAAGAAA
942531 AAAGAAAAAAAAAAGAAA
1 AAAGAAAAAAAAAAGAAA
942549 AAA
1 AAA
942552 AAACACAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (18 bp):
AAAGAAAAAAAAAAGAAA
Found at i:947354 original size:22 final size:22
Alignment explanation
Indices: 947328--947404 Score: 136
Period size: 22 Copynumber: 3.5 Consensus size: 22
947318 ATCTACACTC
947328 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
947350 TTCAAAGATGATTGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
947372 TTTAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
947394 TTCAAAGATGA
1 TTCAAAGATGA
947405 AAGCTTTATG
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 51 1.00
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.42
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:948219 original size:165 final size:166
Alignment explanation
Indices: 947913--948236 Score: 537
Period size: 165 Copynumber: 2.0 Consensus size: 166
947903 AAAATGAGCA
*
947913 TTATCTTGAGATTGGGGGCATGTTACCCAATCAACATGTTATTTCAAAAAAATAATGAGAAAACG
1 TTATCTTGAGATTGGGGGCATGTTACCCAATCAACATGTTATTTCAAAAAAATAATGAGAAAACA
**
947978 ATTTCCATAGTTTCTCATTTTATCTTTTCTAAAATGAAATTGTGAAAAGTAAGAAAATGATTTCC
66 ATTTCCATAGTTTCTCATTCAATCTTTTCTAAAATGAAATTGTGAAAAGTAAGAAAATGATTTCC
948043 TTAGTTTTTTTACTTAGTAAACTATTTCCAACAACT
131 TTAGTTTTTTTACTTAGTAAACTATTTCCAACAACT
* **
948079 TTATCTTGAGATT-GGGGCATGTTACCCAATCAACCTGTTATTT-TGAAAAATAATGAGAAAACA
1 TTATCTTGAGATTGGGGGCATGTTACCCAATCAACATGTTATTTCAAAAAAATAATGAGAAAACA
*
948142 ATTTCCATAGTTTCTCATTCAATCTTTTTTAAAAATGAAATTGTTGAAAAGTAAGAAAATGATTT
66 ATTTCCATAGTTTCTCATTCAATCTTTTCT-AAAATGAAATTG-TGAAAAGTAAGAAAATGATTT
*
948207 CCTTTG-TTTTTTACTTAGTAAACTATTTCC
129 CCTTAGTTTTTTTACTTAGTAAACTATTTCC
948237 CACATCTGTA
Statistics
Matches: 148, Mismatches: 8, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
164 44 0.30
165 65 0.44
166 39 0.26
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.39
Consensus pattern (166 bp):
TTATCTTGAGATTGGGGGCATGTTACCCAATCAACATGTTATTTCAAAAAAATAATGAGAAAACA
ATTTCCATAGTTTCTCATTCAATCTTTTCTAAAATGAAATTGTGAAAAGTAAGAAAATGATTTCC
TTAGTTTTTTTACTTAGTAAACTATTTCCAACAACT
Found at i:948550 original size:75 final size:76
Alignment explanation
Indices: 948239--948960 Score: 1154
Period size: 76 Copynumber: 9.6 Consensus size: 76
948229 CTATTTCCCA
*
948239 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
948304 AGCCTTAGGGT
66 AGCCTTAGGGT
* * * *
948315 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAACGCCTTCAGGAGCTTTTTGATGTTTTTAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
948380 AGCCTTAGGGT
66 AGCCTTAGGGT
*
948391 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
948456 AGCCTTAGGGT
66 AGCCTTAGGGT
* *
948467 CATCTGTAAGTCCTACGGTGCATGATGTTTCC-AAAAGCCTTCGAGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
948531 AGCCTTAGGGT
66 AGCCTTAGGGT
* *
948542 CATGTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
948607 AGCCTTAGGGT
66 AGCCTTAGGGT
* * *
948618 CATCTGTAATTTCTATAGTGCATGATGTTTCC-AAAAGCCTTC-GGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
948681 AGCCTTAGGGT
66 AGCCTTAGGGT
* * *
948692 CATCTGTAAGTCCTACATTGCATAATGTTTCCAAAAAGCCTTCGGG-GTTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
948756 AGCCTTA-GGT
66 AGCCTTAGGGT
*
948766 CATTTGTAAGTCCTACAGTGCATGATG-TTCC-AAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
948829 AGCCTTAGGGT
66 AGCCTTAGGGT
* *
948840 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTATGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* **
948905 AACCTTCTGGT
66 AGCCTTAGGGT
* * * *
948916 TATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAA-CCTTCGGG
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGG
948961 TCATCTGTAA
Statistics
Matches: 600, Mismatches: 39, Indels: 15
0.92 0.06 0.02
Matches are distributed among these distances:
72 13 0.02
73 28 0.05
74 114 0.19
75 127 0.21
76 318 0.53
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.35
Consensus pattern (76 bp):
CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGT
Found at i:948617 original size:151 final size:151
Alignment explanation
Indices: 948239--948958 Score: 1162
Period size: 151 Copynumber: 4.8 Consensus size: 151
948229 CTATTTCCCA
*
948239 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
948304 AGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAACGCCTTC-AGGAGCTTTT
66 AGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAA-GCCTTCGA-GAGCTTTT
*
948368 TGATGTTTTTAAAGCCTTAGGGT
129 TGATGTTTTCAAAGCCTTAGGGT
*
948391 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
948456 AGCCTTAGGGTCATCTGTAAGTCCTACGGTGCATGATGTTTCCAAAAGCCTTCGAGAGCTTTTTG
66 AGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAGCCTTCGAGAGCTTTTTG
948521 ATGTTTTCAAAGCCTTAGGGT
131 ATGTTTTCAAAGCCTTAGGGT
* *
948542 CATGTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* * *
948607 AGCCTTAGGGTCATCTGTAATTTCTATAGTGCATGATGTTTCCAAAAGCCTTCG-GAGCTTTTTG
66 AGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAGCCTTCGAGAGCTTTTTG
948671 ATGTTTTCAAAGCCTTAGGGT
131 ATGTTTTCAAAGCCTTAGGGT
* * *
948692 CATCTGTAAGTCCTACATTGCATAATGTTTCCAAAAAGCCTTCGGG-GTTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* *
948756 AGCCTTA-GGTCATTTGTAAGTCCTACAGTGCATGATG-TTCCAAAAGCCTTCGGGAGCTTTTTG
66 AGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAGCCTTCGAGAGCTTTTTG
948819 ATGTTTTCAAAGCCTTAGGGT
131 ATGTTTTCAAAGCCTTAGGGT
* *
948840 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTATGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* ** * * * * *
948905 AACCTTCTGGTTATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAACCTTCG
66 AGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAGCCTTCG
948959 GGTCATCTGT
Statistics
Matches: 531, Mismatches: 32, Indels: 11
0.93 0.06 0.02
Matches are distributed among these distances:
147 15 0.03
148 100 0.19
149 44 0.08
150 100 0.19
151 161 0.30
152 111 0.21
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.36
Consensus pattern (151 bp):
CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAGCCTTCGAGAGCTTTTTG
ATGTTTTCAAAGCCTTAGGGT
Found at i:948968 original size:46 final size:46
Alignment explanation
Indices: 948892--948996 Score: 176
Period size: 46 Copynumber: 2.3 Consensus size: 46
948882 CAGGAGCTTT
* * *
948892 ATGATGTTTTC-AAAACCTTCTGGTTATCTGTAAGCCCTTCAGTGC
1 ATGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGCCCTTCAATGC
948937 ATGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGCCCTTCAATGC
1 ATGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGCCCTTCAATGC
948983 ATGATGTTTTCAAA
1 ATGATGTTTTCAAA
948997 CATTTCCATC
Statistics
Matches: 56, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
45 11 0.20
46 45 0.80
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (46 bp):
ATGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGCCCTTCAATGC
Found at i:949126 original size:3 final size:3
Alignment explanation
Indices: 949120--949175 Score: 51
Period size: 3 Copynumber: 17.3 Consensus size: 3
949110 TTTTTTTAGT
949120 TTA TTA TTA TTA TTA TTA -TA TATA TATA TTA TATA TTA TATA TATA
1 TTA TTA TTA TTA TTA TTA TTA T-TA T-TA TTA T-TA TTA T-TA T-TA
*
949166 TAA TTA TTA T
1 TTA TTA TTA T
949176 ACAAGGCCCA
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
2 2 0.04
3 28 0.60
4 17 0.36
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:949134 original size:9 final size:10
Alignment explanation
Indices: 949120--949172 Score: 58
Period size: 11 Copynumber: 5.4 Consensus size: 10
949110 TTTTTTTAGT
949120 TTAT-TATTA
1 TTATATATTA
949129 TTAT-TATTA
1 TTATATATTA
949138 -TATATATATA
1 TTATATAT-TA
949148 TTATATATTA
1 TTATATATTA
*
949158 TATATATATAA
1 T-TATATATTA
949169 TTAT
1 TTAT
949173 TATACAAGGC
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
8 3 0.08
9 12 0.31
10 8 0.21
11 16 0.41
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (10 bp):
TTATATATTA
Found at i:949143 original size:2 final size:2
Alignment explanation
Indices: 949136--949167 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
949126 TTATTATTAT
949136 TA TA TA TA TA TA T- TA TA TA T- TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
949168 ATTATTATAC
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 26 0.93
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:949158 original size:20 final size:19
Alignment explanation
Indices: 949127--949175 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 19
949117 AGTTTATTAT
949127 TATTATTATTATATATATA
1 TATTATTATTATATATATA
949146 TATTATATATTATATATATA
1 TATTAT-TATTATATATATA
949166 TAATTATTAT
1 T-ATTATTAT
949176 ACAAGGCCCA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.21
20 17 0.61
21 5 0.18
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TATTATTATTATATATATA
Found at i:950497 original size:136 final size:135
Alignment explanation
Indices: 950350--950594 Score: 427
Period size: 136 Copynumber: 1.8 Consensus size: 135
950340 GATTAGATAA
* *
950350 TAATGTTTATTTATTTTTAAATATTAAGAAAGGGCAGTCTTAAAGCAACTGGATGTCCATTTTCT
1 TAATATTTATTTATTTTTAAATATTAAGAAAGGGCAGTCTTAAAACAACTGGATGTCCATTTTCT
* *
950415 GATATTTTTAATTAAATAAACATCTTATTTTTATAAATTATATATATATATATATATATTAAATG
66 GATATTTTTAAATAAATAAACATCCTATTTTTA-AAATTATATATATATATATATATATTAAATG
950480 TTTTAT
130 TTTTAT
*
950486 TAATATTTATTTATTTTTTAATATTAAGAAAGGGCAGTCTTAAAACAACTGGATGTCCATTTTCT
1 TAATATTTATTTATTTTTAAATATTAAGAAAGGGCAGTCTTAAAACAACTGGATGTCCATTTTCT
*
950551 GATATTTTTAAATAAATAAATATCCTATTTTTAAAATTATATAT
66 GATATTTTTAAATAAATAAACATCCTATTTTTAAAATTATATAT
950595 TAATCTATTA
Statistics
Matches: 103, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
135 11 0.11
136 92 0.89
ACGTcount: A:0.38, C:0.07, G:0.09, T:0.46
Consensus pattern (135 bp):
TAATATTTATTTATTTTTAAATATTAAGAAAGGGCAGTCTTAAAACAACTGGATGTCCATTTTCT
GATATTTTTAAATAAATAAACATCCTATTTTTAAAATTATATATATATATATATATATTAAATGT
TTTAT
Found at i:950749 original size:18 final size:17
Alignment explanation
Indices: 950724--950762 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
950714 ATATTTTATT
950724 TATATTTTATATATAAA
1 TATATTTTATATATAAA
* *
950741 TATATTTTTTTATATAAT
1 TATA-TTTTATATATAAA
950759 TATA
1 TATA
950763 ACTTTGAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TATATTTTATATATAAA
Found at i:950762 original size:26 final size:26
Alignment explanation
Indices: 950710--950762 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
950700 TTCTAAATAA
**
950710 ATAAATATTTTATTTATATTTTATAT
1 ATAAATATTTTATTTATATAATATAT
*
950736 ATAAATATATTTTTTTATATAAT-TAT
1 ATAAATAT-TTTATTTATATAATATAT
950762 A
1 A
950763 ACTTTGAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 12 0.52
27 11 0.48
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (26 bp):
ATAAATATTTTATTTATATAATATAT
Found at i:952163 original size:74 final size:74
Alignment explanation
Indices: 952040--952322 Score: 500
Period size: 74 Copynumber: 3.9 Consensus size: 74
952030 ATAACCTAAT
*
952040 TTGAGCATTATCAAGAAATGACAATTTTGAGCATATTTACAATGTTAGTTGAATGAGCATTATCA
1 TTGAGCATTATCAAGAAATGACAATTTTGAGCATATTTACAATGCTAGTTGAATGAGCATTATCA
952105 TTATCAAAA
66 TTATCAAAA
*
952114 TTGAGCATTATCAAGAAATGACAATTTTGAGCATATTTACAATACTAGTTGAATGAGCATTATCA
1 TTGAGCATTATCAAGAAATGACAATTTTGAGCATATTTACAATGCTAGTTGAATGAGCATTATCA
952179 TTATC-AAA
66 TTATCAAAA
*
952187 TTGAGCATTATCAAGAAATGACAATTTTGAGCATATTTACAATGCTAGTTGAATGAGCATGATCA
1 TTGAGCATTATCAAGAAATGACAATTTTGAGCATATTTACAATGCTAGTTGAATGAGCATTATCA
*
952252 TTATCAACA
66 TTATCAAAA
*
952261 TTGAGCATTATCAAGAAATGACAA-TTTGAGCATA-TTACAATGCTAGTTGAATGAGAATTATC
1 TTGAGCATTATCAAGAAATGACAATTTTGAGCATATTTACAATGCTAGTTGAATGAGCATTATC
952323 CAATACTTAA
Statistics
Matches: 201, Mismatches: 7, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
72 26 0.13
73 81 0.40
74 94 0.47
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.34
Consensus pattern (74 bp):
TTGAGCATTATCAAGAAATGACAATTTTGAGCATATTTACAATGCTAGTTGAATGAGCATTATCA
TTATCAAAA
Found at i:957711 original size:26 final size:26
Alignment explanation
Indices: 957679--957738 Score: 120
Period size: 26 Copynumber: 2.3 Consensus size: 26
957669 ATTATCAAAA
957679 TTGAGCATTATCAAGAAATGACAATT
1 TTGAGCATTATCAAGAAATGACAATT
957705 TTGAGCATTATCAAGAAATGACAATT
1 TTGAGCATTATCAAGAAATGACAATT
957731 TTGAGCAT
1 TTGAGCAT
957739 ATTTACAATG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.32
Consensus pattern (26 bp):
TTGAGCATTATCAAGAAATGACAATT
Found at i:957789 original size:74 final size:74
Alignment explanation
Indices: 957705--957915 Score: 368
Period size: 74 Copynumber: 2.9 Consensus size: 74
957695 AATGACAATT
957705 TTGAGCATTATCAAGAAATGACAATTTTGAGCATATTTACAATGCTAGTTGAATGAGCATTATCA
1 TTGAGCATTATCAAGAAATGACAATTTTGAGCATATTTACAATGCTAGTTGAATGAGCATTATCA
957770 TTATCAAAA
66 TTATCAAAA
* *
957779 TTGTGCATTATCAAGAAATGACAATTTTGAGCATATTTACAATGCTAGTTGAATGAGCATGATCA
1 TTGAGCATTATCAAGAAATGACAATTTTGAGCATATTTACAATGCTAGTTGAATGAGCATTATCA
*
957844 TTATCAACA
66 TTATCAAAA
* * *
957853 TTGAGAATTATCAATAAATGACAATTTTGAGCATATTTACAATGCTAGTTGAATTAGCATTAT
1 TTGAGCATTATCAAGAAATGACAATTTTGAGCATATTTACAATGCTAGTTGAATGAGCATTAT
957916 TGAATACTTA
Statistics
Matches: 129, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
74 129 1.00
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (74 bp):
TTGAGCATTATCAAGAAATGACAATTTTGAGCATATTTACAATGCTAGTTGAATGAGCATTATCA
TTATCAAAA
Found at i:957937 original size:74 final size:73
Alignment explanation
Indices: 957708--957940 Score: 326
Period size: 74 Copynumber: 3.2 Consensus size: 73
957698 GACAATTTTG
957708 AGCATTATCAAGAAATGACAATTTTGAGCATATTTACAATGCTAGTTGAATGAGCATTATCATTA
1 AGCATTATCAAGAAATGACAATTTTGAGCATATTTACAATGCTAGTTGAATGAGCATTATCATTA
*
957773 TCAAAATTGT
66 -CTAAATT-T
*
957783 -GCATTATCAAGAAATGACAATTTTGAGCATATTTACAATGCTAGTTGAATGAGCATGATCATTA
1 AGCATTATCAAGAAATGACAATTTTGAGCATATTTACAATGCTAGTTGAATGAGCATTATCATTA
*
957847 -TCAACATTG
66 CT-AA-ATTT
* * * * *
957856 AGAATTATCAATAAATGACAATTTTGAGCATATTTACAATGCTAGTTGAATTAGCATTATTGAAT
1 AGCATTATCAAGAAATGACAATTTTGAGCATATTTACAATGCTAGTTGAATGAGCATTA-TCATT
*
957921 ACTTAATTT
65 ACTAAATTT
957930 AGCATTATCAA
1 AGCATTATCAA
957941 CACTATCTTG
Statistics
Matches: 141, Mismatches: 12, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
73 2 0.01
74 133 0.94
75 5 0.04
76 1 0.01
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (73 bp):
AGCATTATCAAGAAATGACAATTTTGAGCATATTTACAATGCTAGTTGAATGAGCATTATCATTA
CTAAATTT
Found at i:960606 original size:15 final size:15
Alignment explanation
Indices: 960586--960615 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
960576 CGATAGTTCT
960586 ATGTTTTATTTCAGA
1 ATGTTTTATTTCAGA
960601 ATGTTTTATTTCAGA
1 ATGTTTTATTTCAGA
960616 CAGACAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.07, G:0.13, T:0.53
Consensus pattern (15 bp):
ATGTTTTATTTCAGA
Found at i:963190 original size:16 final size:17
Alignment explanation
Indices: 963158--963198 Score: 66
Period size: 16 Copynumber: 2.5 Consensus size: 17
963148 CGGATAACTA
*
963158 TTTTAGGTATCTAAAAT
1 TTTTAGATATCTAAAAT
963175 TTTTAGATATCT-AAAT
1 TTTTAGATATCTAAAAT
963191 TTTTAGAT
1 TTTTAGAT
963199 CGGATCGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 12 0.52
17 11 0.48
ACGTcount: A:0.34, C:0.05, G:0.10, T:0.51
Consensus pattern (17 bp):
TTTTAGATATCTAAAAT
Done.