genome.fa.s52.2.7.7.80.10.50.1000.6.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: Scaffold52
Parameters: 2 7 7 80 10 50 1000
Length:  1774672

Tables:   1   2   3   4   5   6   7   8   9   

This is table  6  of  9  ( 1067 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)
1103739--1103768	14	2.1	14	93	0	51	40	0	0	60	0.97
1104385--1104413	3	9.7	3	100	0	58	31	0	0	68	0.89
1106480--1106515	15	2.5	15	90	4	56	55	0	0	44	0.99
1106480--1106561	31	2.6	30	78	14	78	52	1	1	45	1.16
1108827--1108864	17	2.4	17	91	8	62	50	0	2	47	1.15
1111910--1111953	18	2.4	19	80	7	54	45	2	0	52	1.13
1111928--1111969	22	1.9	22	85	0	57	42	0	0	57	0.99
1117514--1117552	7	5.6	7	84	9	53	51	0	0	48	1.00
1117719--1117754	17	2.2	16	90	5	54	63	0	2	33	1.08
1117725--1117799	28	2.7	28	78	10	82	62	0	2	34	1.09
1117748--1117836	16	5.3	16	78	11	81	60	0	1	38	1.04
1117748--1117836	32	2.7	33	86	10	119	60	0	1	38	1.04
1117995--1118019	12	2.1	12	100	0	50	16	0	0	84	0.63
1125134--1125195	16	3.8	16	76	18	56	59	1	0	38	1.07
1125147--1125195	17	2.7	18	78	15	57	61	2	0	36	1.08
1126605--1126649	23	2.0	23	82	8	56	40	8	6	44	1.62
1127125--1127519	181	2.2	175	82	11	475	39	8	11	41	1.71
1129135--1129162	2	14.0	2	100	0	56	50	0	0	50	1.00
1135532--1135641	42	2.7	40	74	13	107	50	0	0	49	1.07
1136493--1136537	22	2.0	22	91	0	72	37	22	15	24	1.93
1138628--1138659	16	1.9	17	93	6	57	65	0	0	34	0.93
1139294--1139336	18	2.5	17	84	3	59	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1139296--1139351	22	2.4	24	85	8	71	50	0	0	50	1.00
1139353--1139390	17	2.2	18	85	4	51	42	0	0	57	0.98
1142724--1142748	5	5.0	5	100	0	50	80	0	0	20	0.72
1145135--1145169	16	2.1	17	89	5	54	37	2	0	60	1.12
1145162--1145205	9	4.9	9	81	10	54	43	0	0	56	0.99
1145732--1145799	22	3.1	22	75	14	68	39	0	0	60	0.97
1145746--1145778	16	2.1	16	94	0	57	42	0	0	57	0.98
1145746--1145792	16	2.8	16	79	17	51	42	0	0	57	0.98
1145745--1145793	18	2.7	18	78	12	64	40	0	0	59	0.98
1148892--1148921	15	2.0	15	93	0	51	76	10	13	0	1.01
1150687--1150735	25	1.9	26	84	12	66	59	0	2	38	1.09
1151538--1151581	18	2.4	19	81	11	56	50	0	2	47	1.13
1151559--1151626	34	2.0	34	85	0	91	45	0	0	54	0.99
1151804--1151833	14	2.1	14	93	0	51	40	0	3	56	1.16
1152327--1152368	21	2.0	21	86	9	59	66	0	0	33	0.92
1152807--1152837	13	2.4	13	88	0	53	77	6	16	0	0.97
1157101--1157151	24	2.1	24	100	0	102	25	21	15	37	1.93
1158281--1158313	17	2.0	17	88	5	50	60	0	0	39	0.97
1158521--1158557	19	2.0	19	89	5	58	56	0	0	43	0.99
1158544--1158604	31	1.9	33	90	6	99	47	1	0	50	1.10
1158579--1158638	13	4.1	14	73	14	50	55	0	0	45	0.99
1158584--1158621	20	2.0	20	85	10	53	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1159337--1159376	20	2.0	20	86	13	57	35	0	0	65	0.93
1159807--1159837	3	10.3	3	100	0	62	67	0	0	32	0.91
1160674--1160698	12	2.1	12	100	0	50	0	16	0	84	0.63
1165115--1165163	2	25.0	2	87	4	73	46	4	0	48	1.20
1165611--1165651	21	2.0	21	85	9	57	60	0	0	39	0.96
1166619--1166699	5	16.6	5	74	21	66	62	0	0	37	0.95
1166608--1166679	36	2.0	36	89	5	110	65	0	1	33	1.02
1166627--1166714	28	3.2	26	83	8	95	62	0	1	36	1.03
1166619--1166696	31	2.5	31	82	13	90	62	0	0	37	0.95
1166626--1166697	12	5.8	12	74	9	56	63	0	0	36	0.94
1166705--1166757	18	3.2	18	71	20	60	49	3	0	47	1.19
1166769--1166811	19	2.4	18	81	11	52	53	0	4	41	1.21
1167499--1167536	10	3.8	10	82	10	51	39	0	10	50	1.37
1167544--1167568	12	2.1	12	100	0	50	28	0	0	72	0.86
1167550--1167632	42	2.0	43	83	11	109	48	0	0	51	1.00
1168939--1168963	2	12.5	2	100	0	50	48	0	0	52	1.00
1168883--1169038	80	2.0	80	94	0	276	35	11	11	41	1.78
1170270--1170309	13	3.2	13	83	16	50	57	5	0	37	1.21
1171048--1171084	2	18.5	2	100	0	74	51	0	0	48	1.00
1171197--1171228	12	2.7	12	90	0	55	40	0	9	50	1.35
1171462--1171501	2	20.0	2	100	0	80	50	0	0	50	1.00
1173098--1173161	2	34.5	2	76	14	57	57	1	0	40	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1176461--1176499	2	19.5	2	100	0	78	48	0	0	51	1.00
1178637--1178675	15	2.6	15	83	0	51	51	0	2	46	1.14
1184314--1184355	21	2.0	21	85	4	57	57	2	2	38	1.25
1185319--1185386	10	6.9	10	75	21	72	66	0	0	33	0.92
1185310--1185385	5	15.8	5	75	15	63	64	0	0	35	0.94
1185328--1185399	26	2.9	26	80	12	80	63	0	1	34	1.03
1185319--1185386	13	5.8	12	79	17	56	66	0	0	33	0.92
1185362--1185398	16	2.4	15	90	4	56	64	0	2	32	1.07
1185328--1185391	24	2.5	26	82	12	80	65	0	1	32	1.02
1185329--1185412	26	3.2	26	80	12	77	61	1	1	35	1.11
1186167--1186209	10	4.3	10	80	11	52	39	0	11	48	1.40
1187543--1187698	85	1.9	82	88	6	233	36	11	12	39	1.80
1187745--1187810	30	2.2	30	83	2	78	36	3	6	54	1.41
1188940--1188970	13	2.5	12	94	5	53	54	6	0	38	1.26
1189713--1189745	2	16.5	2	100	0	66	51	0	0	48	1.00
1189806--1189846	21	2.0	21	85	0	55	63	2	2	31	1.20
1190124--1190167	16	2.7	15	86	13	61	52	0	4	43	1.22
1192048--1192080	16	2.0	17	88	5	50	39	0	3	57	1.14
1194244--1194294	24	2.1	24	100	0	102	25	21	15	37	1.93
1195694--1195754	31	1.9	33	90	6	99	47	1	0	50	1.10
1195759--1195783	12	2.1	12	100	0	50	60	0	0	40	0.97
1195735--1195801	22	3.1	22	70	19	61	53	0	0	46	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1196508--1196547	20	2.0	20	86	13	57	35	0	0	65	0.93
1196979--1197009	3	10.3	3	100	0	62	67	0	0	32	0.91
1197846--1197870	12	2.1	12	100	0	50	0	16	0	84	0.63
1202286--1202336	2	26.0	2	88	4	77	47	3	0	49	1.20
1202785--1202825	21	2.0	21	85	9	57	60	0	0	39	0.96
1203789--1203843	5	11.6	5	78	21	57	63	0	0	36	0.95
1203797--1203843	11	4.7	11	75	24	59	65	0	0	34	0.93
1203797--1203858	28	2.2	29	91	2	99	62	0	1	35	1.05
1203789--1203850	16	4.3	15	80	17	62	62	0	1	35	1.05
1203849--1203901	18	3.2	18	71	20	60	49	3	0	47	1.19
1203913--1203955	19	2.4	18	81	11	52	53	0	4	41	1.21
1206113--1206149	2	18.5	2	100	0	74	48	0	0	51	1.00
1207436--1207475	13	3.2	13	83	16	50	57	5	0	37	1.21
1208212--1208248	2	18.5	2	100	0	74	51	0	0	48	1.00
1208361--1208392	12	2.7	12	90	0	55	40	0	9	50	1.35
1210239--1210314	2	40.5	2	75	12	63	57	1	0	40	1.07
1212171--1212196	2	13.0	2	100	0	52	50	0	0	50	1.00
1214605--1214646	21	2.1	21	86	8	61	30	0	2	66	1.04
1214638--1214717	22	3.6	21	75	17	65	41	2	1	55	1.21
1214695--1214757	5	13.0	5	72	12	51	38	3	0	58	1.14
1214710--1214756	17	2.7	18	81	18	64	34	4	0	61	1.15
1215056--1215119	21	3.0	21	80	15	62	37	0	1	60	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1216056--1216092	12	3.1	12	92	0	56	43	0	8	48	1.32
1216594--1216655	24	2.7	24	80	14	76	37	0	0	62	0.95
1216594--1216667	16	4.5	17	68	20	50	39	0	0	60	0.97
1216602--1216656	24	2.2	26	87	9	87	38	0	0	61	0.96
1217317--1217357	2	20.5	2	100	0	82	48	0	0	51	1.00
1220730--1220778	3	16.3	3	95	0	89	65	2	0	32	1.04
1220807--1220860	26	2.0	27	86	10	76	50	0	0	50	1.00
1221844--1221877	9	3.8	9	85	14	52	47	0	0	52	1.00
1222021--1222050	3	10.0	3	100	0	60	66	0	0	33	0.92
1222767--1222801	3	11.7	3	100	0	70	34	0	0	65	0.93

Tables:   1   2   3   4   5   6   7   8   9