genome.fa.s4.2.7.7.80.10.50.1000.3.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_018397257.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_95.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12062019

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   

This is table  3  of  26  ( 3073 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)
825522--825551	14	2.1	15	93	6	53	50	23	0	26	1.50
826084--826151	7	9.1	7	72	23	50	0	26	0	73	0.83
826082--826151	15	4.7	15	73	23	67	0	27	0	72	0.84
826084--826141	4	15.2	4	72	16	52	0	25	0	74	0.82
826082--826151	30	2.3	30	87	0	104	0	27	0	72	0.84
837967--837997	10	3.1	10	100	0	62	0	38	0	61	0.96
838742--838820	35	2.3	35	86	0	113	32	26	11	29	1.91
844855--844906	27	2.0	27	81	11	63	44	9	9	36	1.70
845676--845832	62	2.5	62	74	1	161	54	3	10	31	1.52
846888--846942	23	2.4	23	85	11	69	38	10	29	21	1.88
846999--847176	69	2.6	68	75	6	169	39	12	26	21	1.88
847015--847338	23	14.2	23	71	9	146	35	14	27	22	1.93
856505--856672	71	2.4	71	76	9	175	45	16	15	23	1.85
856635--856774	30	4.6	30	78	4	138	40	16	18	24	1.90
856751--856948	69	2.8	69	82	3	227	42	15	19	22	1.88
856737--857044	71	4.4	71	78	3	293	42	15	18	23	1.88
857078--857371	67	4.3	69	78	3	229	41	15	16	26	1.89
857118--857371	67	3.7	67	79	2	247	41	15	15	27	1.88
857118--857371	134	1.9	137	85	3	352	41	15	15	27	1.88
857201--857393	67	2.9	66	81	1	224	39	16	15	28	1.89
857118--857431	138	2.3	137	81	5	348	41	16	15	26	1.88
859088--859142	20	2.9	18	82	12	65	72	0	1	25	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
859091--859151	20	3.2	19	76	9	61	73	0	1	24	0.92
859094--859143	27	1.9	27	88	8	77	76	0	2	22	0.89
859201--859264	33	1.9	34	93	3	112	62	0	7	29	1.23
863126--863176	26	2.0	26	88	0	75	35	17	27	19	1.94
863151--863197	21	2.2	21	88	0	67	36	21	21	21	1.96
865067--865109	21	2.0	21	95	0	77	34	9	18	37	1.83
867133--867208	23	3.3	23	78	7	82	31	19	13	35	1.90
867119--867208	46	1.9	47	84	2	119	34	20	11	34	1.88
868248--868285	19	2.0	19	100	0	76	63	0	5	31	1.17
874327--874365	18	2.2	18	85	0	51	51	2	2	43	1.29
874778--874811	17	1.9	18	88	5	52	44	14	2	38	1.61
875519--875557	3	13.0	3	100	0	78	66	0	0	33	0.92
911354--911398	6	7.5	6	87	0	63	17	28	0	53	1.44
911384--911451	30	2.3	30	84	0	82	13	35	5	45	1.67
923317--923471	79	2.0	77	94	2	274	48	22	0	29	1.51
923336--923462	38	3.3	38	73	22	136	49	23	0	26	1.50
924750--924868	23	5.2	23	84	1	132	35	11	24	28	1.91
924784--924906	46	2.7	46	80	0	120	37	9	22	30	1.87
924722--924900	69	2.6	68	76	4	162	36	12	22	29	1.90
928880--929388	205	2.5	204	85	0	671	19	11	25	43	1.84
930494--930578	28	3.0	28	89	3	118	29	7	32	30	1.84
930945--931017	38	1.9	38	88	0	110	27	15	32	24	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
931710--931735	2	13.0	2	100	0	52	50	0	0	50	1.00
931830--931876	2	23.5	2	100	0	94	48	0	0	51	1.00
932638--932692	15	4.2	13	71	17	51	32	12	14	40	1.84
933178--933220	20	2.2	20	91	0	68	44	16	6	32	1.74
934340--934372	12	2.8	12	95	0	57	45	0	21	33	1.52
944759--944807	22	2.2	22	77	0	53	69	0	22	8	1.14
947723--947775	24	2.2	25	86	10	74	67	1	7	22	1.25
947730--947786	25	2.2	24	78	9	60	73	0	7	19	1.05
948875--948909	18	1.9	18	88	11	54	28	14	5	51	1.65
950884--951101	77	2.8	75	83	6	242	41	6	12	38	1.69
951248--951311	28	2.3	28	100	0	128	50	0	18	31	1.48
953209--953262	27	2.1	26	83	10	67	55	5	12	25	1.59
953216--953275	27	2.2	27	90	3	93	55	5	13	26	1.59
957463--957920	228	2.0	229	96	0	837	29	14	11	44	1.80
959297--959361	35	1.9	33	84	9	87	36	9	9	44	1.68
959297--959519	36	6.5	35	73	8	145	34	6	13	41	1.70
959405--959519	36	3.2	35	85	3	149	34	5	14	45	1.68
968450--968676	80	2.8	79	88	2	328	32	10	24	32	1.89
969407--969563	72	2.2	73	81	3	183	38	15	21	24	1.92
997876--997912	11	3.4	11	88	0	56	56	0	0	43	0.99
1003289--1003355	29	2.2	31	92	5	111	50	8	2	37	1.49
1003626--1003673	20	2.3	21	86	10	64	60	0	2	37	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1009940--1009984	19	2.4	19	88	0	63	17	26	15	40	1.90
1023683--1023723	15	2.6	16	81	18	50	4	12	4	78	1.07
1026701--1026771	17	4.4	17	70	10	51	28	4	0	67	1.09
1026847--1026878	15	2.1	15	94	0	55	31	0	0	68	0.90
1030871--1030925	16	3.6	15	79	11	58	69	7	0	23	1.14
1043372--1043423	14	3.9	13	75	12	52	34	21	0	44	1.52
1047423--1047481	2	30.5	2	77	13	61	49	0	3	47	1.18
1047407--1047482	34	2.2	34	86	4	100	50	0	5	44	1.24
1047462--1047913	216	2.1	216	85	6	608	40	7	5	46	1.55
1048266--1048337	2	36.0	2	97	0	135	50	0	48	1	1.09
1048677--1048718	22	1.9	21	85	9	57	38	0	9	52	1.34
1050554--1050597	16	2.8	17	80	19	51	56	13	0	29	1.38
1055038--1055135	14	6.9	14	80	10	101	41	23	1	33	1.61
1055038--1055135	28	3.5	28	85	1	124	41	23	1	33	1.61
1056216--1056249	17	2.0	17	88	11	52	38	5	8	47	1.59
1057323--1057367	20	2.2	21	88	4	65	62	8	20	8	1.51
1062828--1062979	45	3.4	45	83	1	144	59	11	23	5	1.51
1062846--1062981	45	3.0	45	84	2	166	59	10	23	6	1.53
1064452--1064484	16	2.1	16	88	11	50	51	6	24	18	1.68
1070941--1071064	37	3.4	37	80	0	122	34	19	21	24	1.96
1072652--1072690	15	2.6	15	95	0	69	46	20	12	20	1.83
1078744--1078791	20	2.4	20	96	0	87	29	29	20	20	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1079666--1079821	67	2.3	67	85	4	208	35	29	12	22	1.91
1081322--1081378	30	1.9	30	92	0	96	35	24	0	40	1.56
1081717--1081779	21	2.9	22	78	4	74	31	7	22	38	1.83
1081806--1081869	22	2.9	22	79	9	76	25	10	21	42	1.85
1093227--1093434	25	8.3	25	81	4	186	38	23	13	24	1.91
1093223--1093434	50	4.2	50	77	5	223	38	23	13	24	1.91
1093221--1093434	75	2.9	74	78	5	234	38	23	13	24	1.91
1103227--1103255	14	2.0	15	93	6	51	24	0	13	62	1.32
1109830--1110019	35	5.4	35	83	2	229	35	6	14	43	1.70
1109830--1110009	71	2.6	70	83	3	220	33	6	15	44	1.72
1114005--1114049	20	2.2	20	96	0	81	35	6	8	48	1.61
1114250--1114304	23	2.4	23	93	0	101	23	16	32	27	1.96
1116729--1116912	35	5.3	35	81	7	207	33	7	14	44	1.74
1118183--1118221	19	2.1	19	95	0	69	35	2	0	61	1.10
1124741--1125013	143	1.9	145	84	6	367	30	21	16	31	1.95
1126316--1126354	17	2.3	17	100	0	78	30	5	23	41	1.76
1147798--1147837	12	3.3	13	86	13	59	50	0	37	12	1.41
1152727--1152764	15	2.5	15	86	4	58	52	2	5	39	1.38
1155790--1156024	68	3.5	67	77	9	233	37	9	19	34	1.84
1168776--1168891	35	3.4	35	70	11	105	33	22	14	29	1.94
1169342--1169499	73	2.1	74	84	3	212	20	15	18	45	1.85
1169469--1169523	21	2.6	21	97	0	101	20	27	14	38	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1170269--1170313	23	2.0	23	86	0	63	26	26	0	46	1.53
1177052--1177189	35	4.0	35	72	5	93	35	26	10	27	1.90
1180812--1180984	85	2.0	87	89	3	269	24	7	13	54	1.64
1182265--1182314	21	2.5	21	83	6	59	30	0	8	62	1.24
1191695--1191765	8	9.1	8	80	9	76	1	38	1	59	1.15
1213109--1213152	22	2.0	22	86	4	63	54	22	2	20	1.56
1218820--1218966	79	1.9	79	85	0	204	32	22	10	34	1.88
1220549--1220730	42	4.4	42	78	4	188	25	14	17	41	1.88
1220548--1220730	83	2.2	84	82	4	219	26	14	17	41	1.88
1227325--1227352	14	2.0	14	100	0	56	57	14	7	21	1.61

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26