genome.fa.s18.2.7.7.80.10.50.1000.3.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: NW_018397271.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_89.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4184555

Tables:   1   2   3   4   5   6   7   8   9   10   11   

This is table  3  of  11  ( 1249 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
618809--618869	25	2.5	24	84	7	77	24	16	32	26	1.96
619938--620073	67	2.0	67	84	0	173	26	14	25	33	1.95
626024--626067	13	3.2	14	84	12	56	0	15	2	81	0.78
626024--626069	6	6.6	7	78	16	51	0	17	2	80	0.81
627680--627739	31	2.0	29	83	6	75	28	10	15	46	1.77
631170--631268	32	2.9	34	71	13	96	28	14	26	31	1.95
633013--633269	29	8.9	28	74	7	183	39	12	12	35	1.81
633038--633259	57	3.8	57	81	5	230	38	13	13	35	1.83
633091--633263	28	6.0	28	69	14	97	39	13	12	34	1.82
633409--633441	17	1.9	17	88	11	50	39	3	15	42	1.62
638897--639110	29	7.3	29	80	5	225	38	10	13	38	1.78
638897--639110	59	3.7	57	81	4	248	38	10	13	38	1.78
641155--641318	49	3.5	46	87	7	176	49	5	4	40	1.47
641213--641297	28	3.3	28	65	21	76	47	4	7	41	1.52
641190--641318	49	2.6	49	96	0	231	48	4	5	41	1.47
642809--642859	21	2.5	21	84	9	61	31	0	9	58	1.30
651709--651744	18	1.9	19	88	5	56	38	13	13	33	1.85
658892--659007	60	1.9	60	83	10	148	42	11	19	26	1.85
663293--663344	25	2.1	25	81	0	59	25	32	19	23	1.97
670648--670711	23	2.8	24	81	13	80	26	10	26	35	1.90
670746--670797	23	2.3	23	82	0	59	19	17	30	32	1.95
670869--670926	23	2.5	23	85	0	80	18	10	36	34	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
676121--676166	16	2.8	17	75	24	53	47	2	0	50	1.13
679960--680083	23	5.4	23	76	0	104	37	11	21	29	1.89
679920--680088	69	2.4	69	81	0	167	34	11	22	31	1.89
679925--680083	46	3.5	46	72	0	138	35	10	22	31	1.88
680077--680134	23	2.5	23	100	0	116	32	17	27	22	1.96
680126--680187	23	2.7	23	82	5	72	27	11	25	35	1.90
680178--680267	23	3.9	23	80	0	63	35	10	18	35	1.85
683738--683794	13	4.2	13	74	12	60	28	14	17	40	1.88
684135--684168	17	2.0	17	94	0	59	29	38	5	26	1.80
688298--688342	22	2.0	22	86	0	63	46	15	13	24	1.82
688490--688545	22	2.5	22	85	5	69	55	23	7	14	1.63
688404--688783	197	1.9	193	84	4	503	42	23	10	23	1.84
688687--688730	21	2.2	19	84	8	52	47	27	6	18	1.73
688961--689002	22	1.9	22	85	0	57	40	26	7	26	1.81
700404--700482	18	4.4	18	67	20	58	39	6	6	48	1.54
702869--702902	2	17.0	2	93	0	59	47	0	0	52	1.00
703025--703064	17	2.3	18	95	4	73	77	5	0	17	0.94
703717--703846	70	1.9	69	82	4	163	51	7	13	27	1.67
711000--711081	30	2.7	30	78	0	92	32	13	18	35	1.90
721497--721555	25	2.4	25	79	0	64	28	30	15	25	1.96
722149--722174	2	13.0	2	100	0	52	50	0	0	50	1.00
747072--747115	22	2.1	20	87	8	61	54	0	0	45	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
749349--749394	24	2.0	23	87	8	67	21	34	8	34	1.84
753742--753774	14	2.3	15	89	5	50	51	0	9	39	1.34
759084--759147	25	2.6	24	85	4	92	21	25	31	21	1.98
762904--762932	2	14.5	2	100	0	58	0	0	48	51	1.00
763135--763190	28	2.0	28	100	0	112	46	21	17	14	1.84
770300--770331	16	2.0	16	93	0	55	59	0	28	12	1.34
772679--773399	363	2.0	362	95	0	1300	33	21	14	30	1.93
777319--777412	45	2.1	43	86	7	127	47	2	4	45	1.34
779375--780340	479	2.0	479	98	0	1864	30	16	22	30	1.96
782039--782672	23	27.7	23	77	3	470	18	25	30	24	1.98
782016--782685	138	4.9	135	79	4	578	18	25	30	24	1.98
782470--782695	46	5.0	44	77	7	134	19	27	30	23	1.98
784196--784252	22	2.6	22	83	8	71	36	24	15	22	1.94
785574--785620	3	15.7	3	100	0	94	34	0	0	65	0.93
786753--786796	18	2.6	17	89	7	63	27	22	0	50	1.50
787940--788015	27	2.8	27	78	7	82	31	22	26	19	1.98
794457--794499	21	2.1	20	87	12	61	41	23	2	32	1.67
808878--808919	7	6.0	7	82	0	57	69	0	30	0	0.89
808879--808921	21	2.0	21	100	0	86	72	0	27	0	0.85
814411--814476	31	2.1	32	83	8	82	16	10	0	72	1.11
818631--818672	22	1.9	22	85	9	59	28	7	14	50	1.69
825157--825283	23	5.6	23	78	4	114	23	35	25	14	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
828142--828174	15	2.1	16	94	5	59	51	12	12	24	1.73
840625--840663	20	1.9	21	84	5	53	25	7	0	66	1.18
849212--849242	14	2.2	14	94	0	53	32	0	0	67	0.91
851237--851345	54	2.0	54	91	3	175	40	22	9	28	1.84
853281--853367	31	2.8	30	84	3	102	21	19	22	35	1.96
859172--859222	23	2.3	23	79	3	59	1	70	23	3	1.14
859196--859249	20	2.8	18	76	13	54	1	70	25	1	1.07
867389--867413	13	1.9	13	100	0	50	48	0	24	28	1.52
872387--872411	13	1.9	13	100	0	50	40	16	4	40	1.67
904691--904732	12	3.8	12	87	12	63	78	0	0	21	0.75
904691--904757	12	6.0	10	86	10	62	79	0	1	19	0.82
904691--904745	11	5.0	11	85	10	69	80	0	0	20	0.72
914545--914581	2	18.5	2	100	0	74	51	0	0	48	1.00
915105--915141	4	9.2	4	93	0	65	24	0	24	51	1.49
915148--915174	2	13.5	2	100	0	54	0	0	48	51	1.00
918089--918132	18	2.4	18	80	3	52	40	13	9	36	1.76
923208--923250	15	2.7	16	82	17	54	51	4	2	41	1.35
924582--924625	23	1.9	23	85	0	61	65	2	9	22	1.32
932684--932722	14	2.7	15	84	8	53	58	5	0	35	1.20
939123--939404	80	3.6	80	86	4	369	32	22	10	34	1.88
939116--939404	156	1.8	157	84	7	397	32	23	10	33	1.88
940691--940733	17	2.6	17	85	3	52	67	9	0	23	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
948540--948597	30	1.9	30	82	6	73	6	37	3	51	1.46
948748--948792	17	2.6	17	82	0	54	24	2	2	71	1.09
949097--950111	252	4.0	252	82	3	1100	35	11	6	47	1.64
957628--957694	28	2.6	25	78	15	73	23	5	23	46	1.74
957642--957704	28	2.2	28	94	0	108	26	7	19	46	1.77
959857--959974	34	3.4	34	84	2	128	42	4	8	44	1.54
961776--961808	16	2.1	16	88	11	50	54	0	15	30	1.41
975795--975842	19	2.5	19	79	0	51	58	6	6	29	1.47
986076--986118	1	43.0	1	90	0	68	0	95	2	2	0.32
997791--997955	57	2.9	58	83	3	199	40	9	11	39	1.73
997791--997980	57	3.3	57	79	10	183	41	8	11	38	1.72
997849--997971	29	4.2	30	77	11	123	39	10	10	39	1.74
997786--997980	28	6.8	29	70	18	122	40	9	10	39	1.72
1001934--1001987	15	3.7	14	80	7	63	68	0	31	0	0.90
1009738--1009776	20	2.0	20	90	10	62	43	0	2	53	1.14
1009963--1010027	33	2.0	32	84	3	85	50	12	4	32	1.60
1013278--1013325	18	2.6	19	86	3	62	56	0	4	39	1.19
1018015--1018062	18	2.6	19	86	3	62	58	0	2	39	1.10
1024965--1025077	36	3.2	36	75	8	106	32	15	19	32	1.93
1026048--1026090	21	2.0	22	86	4	61	44	2	0	53	1.13
1027745--1027810	22	3.0	22	91	4	107	39	0	27	33	1.57
1034592--1034631	20	2.0	21	90	5	64	70	7	2	20	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1034628--1034666	16	2.4	16	84	12	53	64	12	0	23	1.28
1034628--1034666	17	2.4	17	87	8	55	64	12	0	23	1.28
1040460--1040500	17	2.2	20	83	12	52	19	12	2	65	1.36
1041139--1041172	17	2.0	17	88	0	50	5	8	8	76	1.15
1041840--1041894	5	11.0	5	76	20	53	76	0	3	20	0.94
1041842--1041894	19	2.7	20	79	5	63	77	0	3	18	0.92
1041840--1041897	24	2.4	24	85	8	73	75	0	3	20	0.94
1043491--1043528	2	19.0	2	100	0	76	50	0	0	50	1.00
1043831--1043868	20	1.9	20	88	0	58	34	15	15	34	1.90
1046136--1046171	12	2.9	13	84	16	58	0	41	16	41	1.48

Tables:   1   2   3   4   5   6   7   8   9   10   11