genome.fa.s174.2.7.7.80.10.50.1000.10.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: Scaffold174
Parameters: 2 7 7 80 10 50 1000
Length:  2085601

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   

This is table  10  of  15  ( 1687 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)
1146192--1146222	2	15.5	2	100	0	62	48	0	0	51	1.00
1147594--1147623	14	2.1	15	93	6	53	40	0	0	60	0.97
1148348--1148407	22	2.5	24	76	7	70	51	0	0	48	1.00
1148600--1148641	20	2.1	20	86	8	59	47	0	0	52	1.00
1148845--1148903	25	2.5	24	81	8	59	57	5	0	37	1.21
1148860--1148908	22	2.1	25	85	11	68	63	2	0	34	1.06
1153436--1153472	8	4.6	8	89	0	56	29	0	0	70	0.88
1153436--1153483	16	3.0	15	79	11	51	31	0	0	68	0.90
1153389--1153513	40	3.2	40	76	9	125	36	0	1	61	1.06
1153727--1153838	18	5.7	18	70	22	66	40	2	0	56	1.20
1153787--1153845	12	4.4	14	73	23	56	33	5	0	61	1.18
1153820--1153864	12	4.0	12	80	16	60	31	6	0	62	1.21
1153728--1153843	17	7.0	16	70	13	74	39	3	0	56	1.22
1154377--1154406	2	15.0	2	100	0	60	50	0	0	50	1.00
1154464--1154531	35	2.0	34	85	8	93	55	0	0	44	0.99
1155336--1155380	6	7.7	6	85	9	58	44	0	0	55	0.99
1155900--1156007	8	12.7	9	70	18	54	41	0	0	57	1.05
1155944--1156001	29	2.0	28	86	3	80	34	0	0	65	0.93
1155938--1156007	20	3.5	20	84	13	74	35	0	0	64	0.94
1155930--1156009	29	2.6	31	78	11	78	36	1	0	62	1.03
1157382--1157761	205	1.9	205	85	1	537	34	19	16	29	1.94
1160703--1160738	2	18.0	2	100	0	72	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1162390--1162452	27	2.6	25	81	16	78	34	1	0	63	1.04
1162363--1162452	28	3.3	27	73	14	85	37	2	0	60	1.09
1164392--1164438	18	2.6	18	77	12	60	55	21	17	6	1.64
1165687--1165735	26	1.9	25	87	4	71	30	0	0	69	0.89
1165687--1165732	20	2.3	20	77	7	58	32	0	0	67	0.91
1170116--1170161	23	2.1	23	88	8	69	67	0	6	26	1.15
1171267--1171312	18	2.3	21	78	21	71	52	0	6	41	1.27
1171274--1171317	18	2.5	18	96	3	81	54	0	4	40	1.21
1172647--1172703	29	2.0	29	83	13	73	61	0	0	38	0.96
1174294--1174350	26	2.2	26	84	3	80	52	0	0	47	1.00
1174331--1174387	25	2.3	24	80	17	64	52	0	0	47	1.00
1174717--1174746	6	5.0	6	91	0	51	53	0	13	33	1.40
1175774--1175826	3	17.7	3	100	0	106	66	0	0	33	0.92
1175988--1176035	21	2.2	22	85	3	62	45	2	2	50	1.25
1178122--1178154	17	1.9	17	100	0	66	48	6	0	45	1.27
1179417--1179442	2	13.0	2	100	0	52	50	0	0	50	1.00
1179710--1179775	11	5.6	11	70	12	51	62	1	1	34	1.14
1179968--1180012	23	2.0	23	86	0	63	71	0	2	26	0.98
1179930--1180096	91	1.8	90	84	3	228	65	2	2	29	1.17
1180029--1180096	21	3.3	20	78	13	59	67	4	2	25	1.23
1180158--1180191	4	8.8	4	93	6	61	73	0	0	26	0.83
1180162--1180191	15	2.0	15	100	0	60	73	0	0	26	0.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1183476--1183502	2	13.5	2	100	0	54	51	0	0	48	1.00
1184755--1184779	12	2.1	12	100	0	50	40	16	8	36	1.77
1184800--1184828	13	2.3	13	94	5	51	41	0	0	58	0.98
1185784--1185889	10	10.7	10	69	20	53	42	0	1	55	1.10
1185781--1185926	10	12.5	11	69	24	52	43	0	1	54	1.13
1185844--1185898	17	3.4	16	74	16	51	49	0	0	50	1.00
1185826--1185924	34	2.9	34	80	11	96	45	1	0	53	1.07
1185839--1185939	16	6.4	16	72	16	61	44	0	0	54	1.06
1187976--1188013	19	2.0	19	100	0	76	52	5	5	36	1.47
1189460--1189496	13	2.7	15	88	12	53	62	5	0	32	1.18
1190052--1190099	24	2.0	23	88	4	69	35	0	2	62	1.07
1191238--1191281	3	14.7	3	100	0	88	31	0	0	68	0.90
1193581--1193613	2	16.5	2	93	0	57	3	48	0	48	1.17
1193613--1193641	2	14.5	2	100	0	58	48	0	0	51	1.00
1195561--1195590	3	10.0	3	100	0	60	33	0	0	66	0.92
1197720--1197760	12	3.8	11	75	18	50	43	0	0	56	0.99
1198622--1198673	25	2.1	25	92	0	86	42	0	15	42	1.47
1199532--1199594	29	2.2	29	85	5	83	36	1	3	58	1.23
1200477--1200759	150	1.9	152	86	5	410	42	12	6	38	1.67
1204043--1204108	29	2.2	31	79	15	77	40	6	1	51	1.36
1204164--1204242	30	2.6	30	86	4	97	48	1	10	40	1.45
1207057--1207102	24	2.1	22	84	15	60	60	0	0	39	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1207071--1207122	20	2.5	20	81	12	61	63	0	0	36	0.95
1207057--1207121	21	3.0	22	79	20	68	61	0	0	38	0.96
1207253--1207298	15	2.8	16	80	12	58	54	0	0	45	0.99
1207910--1207964	23	2.4	23	76	8	60	36	0	0	63	0.95
1207938--1207974	16	2.2	17	86	13	51	40	0	0	59	0.97
1210790--1210827	3	12.7	3	100	0	76	65	0	0	34	0.93
1215687--1215719	6	5.5	6	96	0	57	87	0	12	0	0.53
1216336--1216376	16	2.6	16	100	0	82	31	12	9	46	1.74
1217018--1217088	5	14.0	5	75	19	67	47	0	0	52	1.00
1217018--1217092	16	4.6	16	83	16	93	49	0	0	50	1.00
1217019--1217082	11	6.1	11	77	20	66	50	0	0	50	1.00
1217316--1217367	21	2.3	23	83	6	63	50	0	0	50	1.00
1217322--1217367	23	2.1	21	84	8	56	50	0	0	50	1.00
1218525--1218616	22	4.5	21	72	21	70	54	0	0	45	0.99
1218553--1218622	21	3.1	22	82	10	72	58	0	0	41	0.98
1218532--1218652	19	6.3	18	72	16	59	55	0	0	43	1.05
1220594--1220639	22	2.1	22	95	0	83	60	19	4	15	1.51
1224121--1224167	21	2.3	20	82	13	60	34	0	2	63	1.06
1224457--1224529	32	2.2	34	80	9	87	39	1	1	57	1.16
1224510--1224550	8	5.2	8	88	2	57	31	0	0	68	0.90
1224497--1224539	16	2.9	15	83	10	52	37	0	0	62	0.95
1224918--1224980	28	2.3	26	76	12	65	28	1	1	68	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1225506--1225578	29	2.4	32	80	13	91	38	1	2	57	1.22
1226269--1226319	21	2.3	23	80	6	61	47	0	0	52	1.00
1226286--1226335	15	3.3	15	76	15	57	44	0	0	56	0.99
1226558--1226583	13	2.0	13	100	0	52	69	0	0	30	0.89
1226840--1226921	16	5.1	16	70	19	64	59	0	1	39	1.05
1226836--1226890	27	2.0	27	86	13	78	67	0	0	32	0.91
1226867--1226943	32	2.3	35	82	10	90	57	0	2	40	1.13
1226854--1226923	24	3.0	23	74	15	63	57	0	1	41	1.08
1226981--1227033	21	2.4	21	81	6	61	49	1	0	49	1.12
1226984--1227033	22	2.3	20	80	16	55	50	2	0	48	1.12
1228435--1228462	11	2.5	11	100	0	56	50	0	0	50	1.00
1228469--1228557	36	2.4	36	83	9	101	39	1	2	57	1.19
1228795--1230527	173	10.0	173	99	0	3439	25	16	14	43	1.86
1230719--1230784	27	2.3	30	79	12	75	51	1	0	46	1.10
1232101--1232137	12	3.1	12	88	0	56	43	0	8	48	1.32
1234726--1234765	20	2.0	21	90	5	64	60	0	0	40	0.97
1235586--1235626	19	2.3	19	79	8	50	39	0	0	60	0.96
1235594--1235642	21	2.3	21	78	0	53	32	2	0	65	1.04
1235616--1235657	15	2.8	15	79	13	50	28	4	0	66	1.12
1236000--1236053	10	5.7	10	73	20	53	51	0	0	48	1.00
1235986--1236052	27	2.5	27	77	15	68	52	0	0	47	1.00
1235998--1236053	27	2.1	27	86	6	78	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)
1236182--1236224	16	2.5	17	92	7	70	41	0	0	58	0.98
1238155--1238180	11	2.4	11	100	0	52	92	0	0	7	0.39
1239677--1239713	11	3.5	11	82	14	51	70	0	0	29	0.88
1239681--1239793	25	4.6	25	68	20	69	62	0	0	36	1.01
1240124--1240166	12	3.6	12	83	0	50	39	0	0	60	0.97
1240158--1240187	15	2.0	15	93	0	51	56	0	0	43	0.99
1241233--1241278	23	2.0	22	87	4	65	69	2	0	28	1.00
1242294--1242331	2	19.0	2	94	0	67	0	47	2	50	1.15
1244402--1244434	16	2.0	17	88	5	50	45	3	0	51	1.16
1248658--1248683	3	8.7	3	100	0	52	34	34	0	30	1.58

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15