genome.fa.s1339.2.7.7.80.10.50.1000.4.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: scaffold195
Parameters: 2 7 7 80 10 50 1000
Length:  1506968

Tables:   1   2   3   4   5   

This is table  4  of  5  ( 550 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)
954988--955013	5	5.2	5	100	0	52	38	19	19	23	1.93
955727--955763	9	4.1	9	92	0	65	29	10	13	45	1.77
956864--957025	82	2.0	82	93	0	279	17	16	21	44	1.87
963275--963327	25	2.1	25	96	0	97	26	13	37	22	1.91
963697--963732	3	12.0	3	100	0	72	33	33	0	33	1.58
968567--968663	24	3.9	25	71	18	69	18	27	19	34	1.95
968668--968735	25	2.7	25	81	6	66	20	19	25	35	1.96
970486--970549	30	2.1	30	82	5	76	35	6	23	34	1.80
972590--972618	3	9.7	3	100	0	58	31	0	0	68	0.89
972641--972678	17	2.3	17	95	4	69	15	18	18	47	1.83
981093--981334	25	9.8	24	69	15	84	35	19	23	21	1.96
989420--989489	3	23.7	3	85	8	99	1	28	0	70	0.96
996110--996150	20	2.0	20	85	0	55	41	9	2	46	1.50
997858--997917	22	2.7	22	85	12	70	76	5	8	10	1.14
1008655--1008698	21	2.1	21	100	0	88	38	11	13	36	1.81
1009226--1009279	27	2.0	27	100	0	108	25	14	18	40	1.89
1021324--1021360	16	2.3	16	95	0	65	59	18	5	16	1.55
1027452--1027506	29	2.0	27	82	13	67	60	10	14	14	1.60
1029085--1029157	21	3.5	21	76	16	62	8	20	1	69	1.21
1031145--1031199	29	2.0	27	82	13	67	60	10	14	14	1.60
1035071--1035285	45	4.8	44	77	6	143	25	20	12	42	1.86
1035074--1035278	89	2.3	89	81	7	229	25	20	12	41	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1035496--1035529	17	2.0	17	88	0	50	52	14	0	32	1.42
1042207--1042966	315	2.5	302	84	6	919	41	10	13	34	1.78
1043183--1043219	17	2.1	18	85	14	51	40	5	0	54	1.24
1045379--1045509	40	3.3	40	82	5	169	15	28	17	38	1.90
1045406--1045507	20	5.2	19	69	5	78	14	29	17	38	1.90
1047769--1047837	22	3.0	22	71	8	66	36	17	10	36	1.84
1047769--1047850	22	3.6	22	72	6	65	36	18	10	34	1.86
1054802--1054829	2	14.0	2	100	0	56	50	50	0	0	1.00
1063150--1063186	7	5.3	7	96	0	56	21	0	0	78	0.75
1063132--1063183	15	3.5	15	79	12	54	26	1	0	71	0.97
1063144--1063186	7	6.1	7	91	0	50	20	2	0	76	0.89
1063132--1063193	28	2.1	30	82	8	74	29	1	0	69	0.98
1064464--1064541	27	2.9	27	80	3	95	19	21	34	24	1.96
1064607--1064643	16	2.4	16	90	4	58	59	5	2	32	1.34
1064867--1064905	19	2.1	19	100	0	78	53	15	0	30	1.42
1068717--1068789	23	3.3	21	83	11	74	15	17	27	39	1.90
1068729--1068832	46	2.3	45	81	5	120	15	16	25	43	1.87
1068753--1068830	23	3.5	22	75	15	70	14	16	24	44	1.84
1077924--1078099	57	3.1	57	85	3	228	43	5	21	29	1.75
1092970--1093060	24	3.8	24	65	17	62	58	0	1	40	1.05
1094152--1094281	66	2.0	66	95	0	233	33	11	6	48	1.64
1106285--1106318	18	1.9	17	88	5	50	52	5	8	32	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1106280--1106335	23	2.5	23	85	2	69	50	7	10	32	1.64
1106540--1106594	3	18.0	3	84	3	65	58	0	7	34	1.26
1110601--1110725	40	3.2	40	89	1	180	34	19	21	24	1.96
1110754--1111024	41	6.6	41	85	1	382	21	17	29	30	1.96
1111681--1111718	14	2.7	15	84	12	53	26	2	31	39	1.70
1111308--1111838	284	1.8	286	82	7	682	27	3	27	41	1.70
1113595--1113739	72	2.0	73	98	1	283	33	6	19	40	1.78
1113714--1113752	21	1.9	21	89	5	62	43	2	20	33	1.65
1115816--1115935	39	3.1	39	62	21	99	25	10	17	46	1.79
1115785--1115949	76	2.2	76	97	1	312	26	8	20	44	1.79
1116780--1116819	13	3.1	13	88	0	62	45	20	5	30	1.72
1118410--1118442	16	2.0	17	88	5	50	57	3	15	24	1.52
1121643--1121768	41	3.0	40	80	7	146	21	15	29	33	1.95
1124086--1124163	24	3.2	25	75	10	74	41	21	19	17	1.91
1124169--1124261	25	3.8	24	80	11	84	35	21	23	19	1.96
1124345--1124411	25	2.8	24	78	13	82	38	11	28	20	1.88
1127950--1128016	24	2.8	24	83	0	89	19	22	5	52	1.67
1127988--1128121	40	3.4	40	91	3	209	22	23	4	49	1.68
1128074--1128112	15	2.5	16	87	4	53	20	25	2	51	1.60
1128562--1128615	28	2.0	28	92	3	92	12	25	0	61	1.32
1132110--1132169	25	2.3	26	97	2	113	28	23	26	21	1.99
1148143--1148188	9	5.1	9	94	0	83	45	13	10	30	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1148231--1148291	30	2.0	30	90	0	95	19	36	0	44	1.51
1148402--1148461	30	2.0	31	83	9	79	20	38	0	41	1.52
1149561--1149603	18	2.4	18	92	7	70	44	13	9	32	1.76
1149574--1149612	18	2.2	18	90	0	60	46	12	12	28	1.79
1151547--1151584	19	2.0	19	90	10	60	36	5	26	31	1.79
1151926--1152041	58	1.9	58	84	8	153	43	4	4	48	1.42
1151928--1152055	58	2.1	61	80	12	142	44	3	5	46	1.45
1153797--1153834	19	2.0	19	90	10	60	36	5	26	31	1.79
1154176--1154291	58	1.9	58	84	8	153	43	4	4	48	1.42
1154178--1154305	58	2.1	61	80	12	142	44	3	5	46	1.45
1189217--1189263	22	2.2	21	84	3	58	36	31	12	19	1.89
1190848--1190940	34	2.7	34	88	3	143	40	0	17	41	1.49
1191043--1191560	124	4.2	124	82	3	603	37	15	17	29	1.91
1208048--1208094	26	1.9	23	83	12	58	40	2	14	42	1.58
1208122--1208223	31	3.2	33	65	16	97	53	6	3	35	1.46
1208111--1208270	62	2.6	62	97	2	297	51	7	3	37	1.48
1208377--1208421	21	2.1	21	87	0	63	15	6	37	40	1.74
1210227--1210284	24	2.4	24	83	11	66	65	0	1	32	1.03
1213671--1213709	10	3.9	10	93	0	51	17	5	0	76	0.96
1213677--1213709	5	6.6	5	92	0	57	18	3	0	78	0.87
1213949--1213994	24	1.9	23	83	16	58	47	8	10	32	1.69
1221199--1221250	23	2.3	22	80	9	59	11	36	7	44	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1221330--1221386	30	1.9	30	92	0	96	22	24	14	38	1.91
1232084--1232211	41	3.1	40	80	12	136	21	31	17	30	1.96
1233308--1233348	21	2.0	21	85	9	57	24	12	4	58	1.53
1238209--1238274	13	5.1	13	81	0	87	30	9	25	34	1.87
1251730--1251840	40	2.8	40	79	6	102	34	23	21	20	1.97
1252601--1252630	14	2.1	14	93	0	51	23	0	26	50	1.50
1252673--1252770	7	13.9	7	79	1	70	20	4	28	46	1.68
1254333--1254368	14	2.6	14	91	8	56	19	8	16	55	1.66
1255198--1255235	7	5.6	7	81	6	51	18	0	34	47	1.49
1255199--1255236	20	1.9	20	94	0	67	21	0	34	44	1.52
1256783--1256818	14	2.6	14	91	8	56	19	8	16	55	1.66
1257929--1257953	5	5.0	5	100	0	50	20	0	0	80	0.72
1258001--1258135	9	14.7	9	69	19	66	45	16	1	37	1.57
1258096--1258369	46	6.2	46	74	14	231	46	14	3	35	1.62
1258251--1258410	9	18.0	9	70	19	79	48	16	1	33	1.57
1258253--1258349	16	6.1	16	75	16	94	48	16	1	34	1.53
1258293--1258371	21	3.6	21	69	24	63	50	12	2	34	1.54
1258051--1258369	171	1.9	170	93	0	548	46	15	3	35	1.62
1258267--1258396	46	2.8	46	87	8	167	50	15	1	33	1.54
1258379--1258411	16	2.1	16	94	0	57	48	15	3	33	1.60
1258610--1258845	9	27.8	9	77	11	221	45	19	2	33	1.62
1258613--1258842	25	9.1	26	81	5	196	45	19	2	33	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1258611--1258885	34	8.1	34	73	13	169	45	18	1	33	1.60
1258623--1258841	43	5.4	41	76	16	170	45	19	2	32	1.63
1258610--1258858	68	3.7	68	80	7	210	45	18	2	33	1.61
1260783--1260832	21	2.4	21	82	0	64	34	14	46	6	1.69
1261208--1261301	43	2.2	43	80	5	100	34	17	25	23	1.96
1261222--1261389	43	3.9	43	85	3	221	28	17	28	25	1.97
1263513--1263575	11	5.8	10	77	14	54	65	3	3	28	1.24
1263508--1263564	18	3.2	18	74	18	57	63	1	5	29	1.27
1263516--1263566	17	2.9	17	80	11	59	66	1	3	27	1.20
1271633--1271730	48	2.0	48	94	3	171	42	18	5	33	1.72

Tables:   1   2   3   4   5