genome.fa.s40.2.7.7.80.10.50.1000.8.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: Scaffold40
Parameters: 2 7 7 80 10 50 1000
Length:  3440810

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   

This is table  8  of  24  ( 2833 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)
1043510--1043571	32	2.1	28	80	19	65	48	0	0	51	1.00
1043491--1043571	33	2.5	34	86	11	116	46	0	0	53	1.00
1043492--1043583	33	2.9	31	84	13	109	44	1	0	54	1.07
1043629--1043670	16	2.6	16	88	7	59	47	0	0	52	1.00
1043770--1043836	31	2.1	33	86	8	93	55	0	0	44	0.99
1044111--1044147	11	3.4	11	84	0	56	37	0	0	62	0.96
1044110--1044159	22	2.3	22	82	3	57	40	2	0	58	1.10
1044407--1044443	11	3.4	11	84	0	56	37	0	0	62	0.96
1043990--1044645	296	2.2	295	93	1	1116	37	7	7	47	1.60
1048247--1048426	92	1.9	93	94	1	317	31	17	9	41	1.81
1048395--1048462	34	2.0	34	94	0	118	32	23	8	35	1.86
1048303--1048551	127	2.0	126	91	0	408	31	19	8	40	1.82
1048429--1049054	93	6.9	92	83	7	771	32	17	8	42	1.78
1049654--1049719	30	2.4	28	82	14	75	51	1	1	45	1.19
1049925--1049959	14	2.6	14	90	4	54	34	0	2	62	1.10
1050312--1050337	13	2.0	13	100	0	52	23	0	0	76	0.78
1050356--1050432	27	2.9	27	77	7	70	45	0	0	54	0.99
1050371--1050432	27	2.3	27	81	10	74	43	0	0	56	0.99
1050387--1050449	31	2.2	28	81	16	67	44	0	0	55	0.99
1052505--1052534	2	15.0	2	92	0	51	53	0	0	46	1.00
1052668--1052731	17	3.8	17	76	12	60	48	0	0	51	1.00
1052649--1052772	16	7.5	17	63	18	57	50	0	0	49	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1053197--1053265	15	4.3	15	71	18	59	40	1	0	57	1.07
1070294--1070319	12	2.2	12	100	0	52	34	0	23	42	1.54
1071089--1071132	22	2.0	22	82	8	54	27	4	13	54	1.58
1071315--1071364	8	6.2	8	77	13	50	66	0	0	34	0.92
1074635--1074693	28	2.1	28	81	12	68	37	16	6	38	1.76
1075281--1075320	15	2.6	16	80	11	57	72	12	2	12	1.22
1078717--1078741	2	12.5	2	100	0	50	52	48	0	0	1.00
1079107--1079133	14	1.9	14	100	0	54	29	7	62	0	1.22
1079295--1079347	24	2.1	24	86	6	70	45	1	0	52	1.11
1079302--1079353	24	2.2	24	82	6	61	50	1	0	48	1.12
1079800--1079849	20	2.6	19	84	6	64	36	0	8	56	1.29
1079850--1079910	27	2.2	28	82	2	79	44	3	11	40	1.57
1079893--1080061	20	8.2	20	74	11	110	40	0	7	51	1.34
1079961--1080074	39	2.9	39	82	2	131	35	0	9	54	1.39
1079961--1080079	59	2.0	59	82	6	143	36	0	9	53	1.39
1080085--1080135	21	2.5	20	84	9	68	45	0	1	52	1.12
1080085--1080143	19	3.0	19	83	9	82	44	0	3	52	1.17
1080018--1080151	68	2.0	67	83	1	169	41	0	6	50	1.34
1080698--1080745	25	1.9	25	87	8	71	41	4	0	54	1.20
1081137--1081235	51	2.0	48	88	7	146	37	12	6	44	1.66
1084506--1084549	16	2.8	16	85	0	61	59	29	6	4	1.44
1084740--1084793	22	2.5	22	84	6	56	51	5	3	38	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1085222--1085251	15	2.0	15	93	0	51	40	0	3	56	1.16
1085321--1085353	2	16.5	2	100	0	66	51	0	0	48	1.00
1085718--1085777	13	4.2	14	72	10	50	55	0	0	45	0.99
1085935--1085968	16	2.1	16	100	0	68	47	17	17	17	1.84
1085935--1085977	16	2.8	16	89	3	52	41	18	20	18	1.90
1090902--1090964	28	2.2	28	75	8	65	49	0	0	50	1.00
1091627--1091660	17	1.9	18	88	5	52	64	0	0	35	0.94
1093597--1093645	21	2.3	20	89	6	71	53	4	0	42	1.20
1096981--1097016	19	2.0	19	89	10	58	44	5	0	50	1.25
1102469--1102493	7	3.6	7	100	0	50	72	0	28	0	0.86
1108886--1108920	16	2.2	16	89	0	52	37	0	0	62	0.95
1111920--1111967	14	3.5	13	78	16	53	41	0	0	58	0.98
1111921--1111974	27	1.9	28	92	7	92	42	0	0	57	0.98
1111984--1112074	27	3.4	24	72	22	67	52	1	0	46	1.07
1112029--1112078	25	2.1	24	82	17	61	62	0	0	38	0.96
1112472--1112555	22	3.8	22	72	12	73	39	1	2	57	1.20
1112204--1112570	199	1.8	198	87	5	544	40	1	5	51	1.36
1116002--1116040	21	1.9	21	89	5	62	38	0	0	61	0.96
1116034--1116111	36	2.2	34	80	11	86	56	1	0	42	1.07
1117273--1117325	15	3.6	16	73	17	51	47	0	0	52	1.00
1117326--1117392	26	2.7	25	80	13	84	64	1	0	34	1.03
1117355--1117390	13	2.8	13	84	16	56	61	0	0	38	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1122105--1122176	22	3.4	20	76	12	72	54	0	0	45	0.99
1124934--1125010	24	3.2	24	67	20	61	48	9	5	37	1.57
1124927--1125020	48	2.0	48	91	0	152	48	10	6	34	1.63
1126972--1127008	19	2.0	19	94	5	67	48	0	2	48	1.15
1127188--1127240	28	1.9	28	84	3	72	39	0	9	50	1.35
1127686--1127739	23	2.4	22	85	11	58	35	0	0	64	0.94
1127667--1127738	24	3.1	23	84	11	78	34	1	0	63	1.03
1127373--1127732	195	1.8	196	88	4	555	40	1	5	52	1.35
1127754--1127799	22	2.1	21	84	11	58	69	0	0	30	0.89
1129890--1129930	19	2.2	19	91	4	66	31	12	17	39	1.86
1129973--1129997	13	1.9	13	100	0	50	32	16	16	36	1.90
1130006--1130134	52	2.5	52	98	0	249	34	18	18	27	1.95
1134925--1134957	16	2.0	17	94	5	59	33	12	6	48	1.65
1135099--1135425	116	2.8	116	83	9	391	40	3	2	53	1.28
1139715--1139739	13	1.9	13	100	0	50	40	8	16	36	1.77
1139839--1139877	21	1.9	20	89	5	60	35	10	15	38	1.81
1140324--1140372	23	2.0	25	84	7	66	38	6	2	53	1.38
1141515--1141591	20	3.9	19	74	6	73	35	11	11	41	1.78
1141515--1141592	40	2.0	39	84	2	102	34	11	12	41	1.80
1148689--1148740	23	2.3	23	86	6	70	76	5	11	5	1.13
1148651--1148738	39	2.2	40	84	10	108	73	7	12	5	1.22
1148983--1149015	12	2.8	12	100	0	66	93	6	0	0	0.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1150025--1150681	27	24.0	27	89	2	956	23	33	13	28	1.93
1150025--1150678	82	8.0	82	89	2	965	24	33	13	29	1.93
1150026--1150680	109	6.0	108	89	2	934	23	33	13	29	1.93
1150664--1151277	32	19.2	32	92	2	993	30	33	18	17	1.94
1151859--1151935	20	3.9	19	74	6	73	35	11	11	41	1.78
1151859--1151936	40	2.0	39	84	2	102	34	11	12	41	1.80
1157014--1157081	23	3.2	21	76	11	68	63	0	0	36	0.95
1160904--1160928	13	1.9	13	100	0	50	40	8	16	36	1.77
1161028--1161066	21	1.9	20	94	5	69	35	12	15	35	1.86
1163509--1163535	2	13.5	2	100	0	54	48	0	0	51	1.00
1170671--1170736	16	4.1	16	69	13	55	62	1	0	36	1.05
1175477--1175554	34	2.3	35	76	14	90	44	1	0	53	1.08
1175712--1175752	19	2.3	19	87	8	59	36	4	0	58	1.20
1178978--1179125	57	2.6	58	80	5	151	53	17	5	23	1.64
1178934--1179125	58	3.3	55	76	7	159	51	16	5	26	1.67
1179120--1179195	29	2.6	31	73	23	74	52	13	6	27	1.64
1179144--1179237	29	3.2	28	68	24	70	50	11	8	29	1.69
1179174--1179376	111	1.8	111	83	6	268	48	11	11	28	1.74
1180289--1180335	10	4.6	10	81	7	51	2	12	2	82	0.84
1180290--1180332	19	2.3	19	84	8	52	2	13	2	81	0.89
1184810--1184938	52	2.5	52	97	0	240	28	17	18	34	1.94
1184947--1184971	13	1.9	13	100	0	50	36	16	16	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1185013--1185111	19	5.9	17	69	28	70	36	17	11	35	1.85
1185009--1185109	32	3.1	32	92	1	166	35	17	10	35	1.85
1185033--1185089	13	3.9	13	72	24	51	35	17	12	35	1.87
1185802--1186455	43	14.1	43	77	12	588	30	18	26	24	1.98
1185768--1186032	92	2.8	92	93	2	433	33	18	23	25	1.97
1185766--1186269	237	2.1	236	91	1	812	31	17	25	25	1.97
1185802--1186455	92	7.1	92	88	4	749	30	18	26	24	1.98
1186450--1186707	33	7.9	33	87	5	373	18	17	34	29	1.94
1186443--1186707	64	4.1	65	87	4	369	18	17	34	29	1.94
1186443--1186707	97	2.8	97	91	3	421	18	17	34	29	1.94

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