genome.fa.s17.2.7.7.80.10.50.1000.3.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_018397270.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_55.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4719911

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

This is table  3  of  10  ( 1158 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)
836851--836891	22	1.9	21	85	5	55	43	7	0	48	1.30
837155--837222	26	2.5	28	81	9	79	60	1	1	36	1.15
837155--837221	29	2.5	26	82	7	80	61	1	1	35	1.15
848162--848219	3	19.3	3	89	0	89	34	34	0	31	1.58
849334--849406	29	2.5	30	70	14	71	54	2	5	36	1.38
850359--850394	17	2.2	16	90	5	54	41	2	0	55	1.14
856044--856135	45	2.0	45	82	0	112	25	9	20	44	1.82
862791--863100	152	2.0	152	91	1	505	37	20	10	31	1.87
864506--864541	19	1.9	19	94	5	65	44	25	0	30	1.54
865256--865331	38	2.0	38	87	5	109	35	26	19	18	1.95
869815--869887	37	2.0	36	84	10	94	30	21	27	20	1.98
872904--872972	36	1.9	36	82	11	88	24	13	28	33	1.93
874516--874543	14	2.0	14	100	0	56	50	7	0	42	1.30
888777--888811	18	2.0	17	88	5	52	28	22	5	42	1.76
889016--889084	21	3.3	21	93	2	113	23	14	24	37	1.92
912155--912327	35	4.9	35	80	4	181	35	6	13	43	1.71
912182--912327	71	2.1	71	89	2	222	35	8	13	42	1.74
922196--922237	14	3.0	15	83	13	54	50	0	0	50	1.00
923032--923103	8	9.1	8	83	6	85	59	1	37	1	1.15
923041--923101	31	2.0	31	90	0	95	59	0	39	1	1.08
923039--923103	23	2.8	24	79	6	80	61	0	36	1	1.05
929526--929634	28	3.9	28	82	7	132	42	10	11	35	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
933023--933274	127	2.0	128	88	0	371	38	3	12	44	1.61
941513--941537	13	1.9	13	100	0	50	20	0	8	72	1.10
949838--949939	29	3.6	29	81	9	120	51	3	23	20	1.63
959196--959267	21	3.4	21	76	0	72	41	13	13	30	1.84
961537--961576	3	13.3	3	89	0	62	37	0	27	35	1.57
962632--962862	118	1.9	119	82	2	277	27	12	25	30	1.91
970386--970472	27	3.1	28	80	5	113	34	0	1	64	1.01
980557--981219	336	2.0	336	97	0	1263	41	10	17	30	1.83
984545--984631	43	2.0	43	93	0	147	25	24	5	44	1.75
988039--988080	19	2.2	19	91	8	68	19	30	0	50	1.48
988382--988525	53	2.6	55	83	6	175	40	14	14	30	1.86
988495--988607	59	1.9	59	83	3	147	34	13	14	38	1.85
988684--988735	26	2.0	26	85	7	70	42	11	15	30	1.82
988748--988797	18	2.8	18	78	0	64	38	22	18	22	1.94
993153--993197	19	2.3	20	81	11	58	17	26	0	55	1.42
996613--996658	19	2.3	19	85	11	56	19	23	0	56	1.42
997758--997810	25	2.0	26	85	7	72	11	5	3	79	1.03
1002286--1002319	18	1.9	17	88	5	50	50	26	2	20	1.63
1002259--1002294	2	18.0	2	100	0	72	50	0	0	50	1.00
1003032--1003062	2	15.5	2	93	0	53	48	3	0	48	1.17
1004288--1004334	19	2.6	19	90	6	71	57	0	2	40	1.11
1006041--1006129	25	3.6	25	81	6	99	30	14	10	44	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1007393--1007445	23	2.3	23	78	12	56	26	7	9	56	1.57
1013923--1013980	30	1.9	31	86	6	84	53	1	8	36	1.42
1014834--1014953	63	1.9	63	87	0	177	25	30	12	32	1.92
1020951--1021246	31	9.6	31	80	4	294	35	18	15	30	1.92
1021938--1022143	92	2.2	92	86	5	272	24	31	17	26	1.97
1021938--1022143	47	4.4	47	84	4	274	24	31	17	26	1.97
1029250--1029287	19	2.0	19	90	10	60	5	7	13	73	1.22
1031319--1031408	46	2.0	43	89	10	137	45	18	17	17	1.86
1031395--1031431	14	2.6	14	91	0	56	45	18	24	10	1.81
1035397--1035445	21	2.3	21	78	3	53	40	8	8	42	1.64
1038564--1038867	152	2.0	152	97	0	572	36	9	17	36	1.83
1039022--1039157	29	4.7	29	84	3	150	41	7	11	39	1.68
1039022--1039192	29	5.9	29	78	12	149	44	6	10	38	1.65
1039331--1039363	17	1.9	17	88	11	50	39	3	15	42	1.62
1044505--1044549	22	2.0	22	100	0	90	44	13	8	33	1.75
1064900--1065053	29	5.3	28	79	11	134	42	8	13	35	1.75
1064938--1065064	60	2.1	59	88	4	184	41	7	13	37	1.73
1064917--1065066	29	5.1	27	79	13	138	42	8	13	36	1.73
1065316--1065388	36	2.0	36	97	0	137	27	13	19	39	1.89
1067542--1067685	72	2.0	72	86	0	198	36	16	13	32	1.88
1084670--1084736	27	2.4	27	85	5	89	37	11	11	38	1.79
1084929--1084991	28	2.2	29	82	2	74	41	7	7	42	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1095229--1095260	2	17.0	2	87	12	50	53	0	0	46	1.00
1096821--1096913	46	2.0	46	95	0	168	43	16	9	31	1.80
1099134--1099179	13	3.6	13	80	14	60	19	23	4	52	1.64
1099404--1099447	20	2.2	20	87	0	61	38	18	9	34	1.82
1100086--1100126	16	2.5	17	80	15	50	29	7	0	63	1.21
1100935--1101078	72	2.0	72	85	5	193	22	26	15	36	1.93
1102210--1102447	68	3.7	64	77	8	169	36	19	11	32	1.88
1102272--1102520	68	3.7	68	79	3	243	34	20	12	32	1.89
1107006--1107097	8	11.8	8	75	11	66	61	1	34	2	1.15
1107013--1107061	4	12.5	4	80	4	55	71	0	26	2	0.97
1114178--1114204	6	4.5	6	100	0	54	18	0	14	66	1.25
1116618--1116673	27	2.1	27	100	0	112	48	10	10	30	1.72
1124285--1124329	18	2.5	18	82	10	56	55	2	42	0	1.12
1124291--1124332	22	1.9	22	90	0	66	54	2	42	0	1.13
1124304--1124362	16	3.5	18	77	13	63	59	1	38	0	1.08
1137421--1137635	35	5.9	35	73	9	160	44	14	6	34	1.71
1140842--1140942	51	2.0	53	82	9	129	34	9	19	35	1.85
1141376--1141469	47	2.0	47	100	0	188	42	14	19	23	1.88
1143112--1143154	23	2.0	22	86	9	61	62	2	11	23	1.40
1170993--1171026	18	1.9	18	94	5	61	41	17	5	35	1.74
1176144--1176192	18	2.6	19	87	6	64	55	0	2	42	1.11
1179014--1179678	330	2.0	329	90	2	1057	24	19	13	41	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1181563--1182042	238	2.0	238	95	0	861	46	9	18	25	1.79
1185293--1185441	77	1.9	76	84	1	199	44	9	7	38	1.65
1185986--1186062	20	3.8	20	72	24	79	53	3	1	41	1.27
1186010--1186049	17	2.4	17	86	0	53	55	5	2	37	1.35
1186184--1186375	64	3.0	64	85	3	289	39	6	11	42	1.68
1186536--1186575	19	2.1	19	85	0	53	37	30	10	22	1.87
1187884--1187956	36	2.0	36	97	0	137	26	38	2	32	1.71
1199194--1199267	33	2.3	33	86	13	102	70	0	2	27	1.01
1199299--1199359	13	4.6	14	76	10	56	72	1	0	26	0.94
1199205--1199359	44	3.7	40	71	15	123	68	1	2	27	1.13
1199304--1199389	33	2.6	32	83	9	93	69	1	2	26	1.07
1200691--1200745	28	2.0	28	85	0	74	21	1	16	60	1.45
1204132--1204157	7	3.7	7	100	0	52	57	0	0	42	0.98
1204132--1204201	14	4.6	15	75	18	56	58	2	1	37	1.22
1204906--1204949	6	7.7	6	82	10	56	50	13	0	36	1.42
1204911--1204947	16	2.3	16	95	0	65	51	13	0	35	1.41
1204984--1205052	14	4.9	15	70	21	51	44	8	1	44	1.43
1205035--1205084	22	2.3	21	83	10	57	48	4	2	46	1.32
1217031--1217067	17	2.2	18	85	9	51	37	8	2	51	1.46
1217130--1217174	23	2.0	23	82	8	56	55	2	6	35	1.38
1227227--1227254	14	2.0	14	100	0	56	21	0	28	50	1.49
1227828--1227969	69	2.0	68	90	2	185	40	14	8	37	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1227828--1227948	35	3.5	35	83	7	156	38	14	7	38	1.75
1227849--1227969	35	3.5	35	81	2	154	42	13	8	36	1.74
1233516--1233550	14	2.4	14	90	4	52	71	0	2	25	1.00
1233525--1233555	14	2.1	15	94	5	55	74	0	0	25	0.82
1234305--1234344	18	2.2	18	90	4	62	75	0	0	25	0.81
1236762--1236804	17	2.5	17	81	7	52	39	6	0	53	1.28
1238274--1238299	12	2.2	12	100	0	52	0	57	0	42	0.98
1244750--1244831	34	2.4	34	79	0	101	40	30	7	21	1.81
1248756--1248785	10	2.8	11	90	10	53	40	0	0	60	0.97
1248899--1248948	12	4.0	13	78	17	52	30	0	0	70	0.88

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