genome.fa.s2.2.7.7.80.10.50.1000.7.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: Scaffold2
Parameters: 2 7 7 80 10 50 1000
Length:  5794061

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   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   

This is table  7  of  38  ( 4457 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)
1049959--1050531	35	16.8	34	82	9	595	20	33	12	33	1.89
1049959--1050531	105	5.6	103	84	9	660	20	33	12	33	1.89
1050303--1050362	27	2.2	27	84	0	75	18	40	15	26	1.90
1050269--1050449	60	2.8	62	82	11	215	20	38	12	29	1.89
1050572--1051931	49	27.7	49	80	9	1434	24	26	17	31	1.97
1050572--1051931	98	13.8	98	85	7	1662	24	26	17	31	1.97
1051341--1051475	43	3.0	43	86	6	162	26	24	17	31	1.97
1051433--1051570	52	2.6	52	81	3	150	26	23	15	34	1.94
1051434--1051746	171	1.8	170	83	6	420	25	25	15	33	1.95
1051754--1051891	43	3.1	43	91	5	204	25	26	18	28	1.98
1052867--1052933	33	2.0	33	88	0	98	34	11	13	40	1.81
1052887--1052911	13	1.9	13	100	0	50	36	16	16	32	1.90
1052976--1053000	13	1.9	13	100	0	50	32	16	16	36	1.90
1053009--1053129	52	2.3	52	97	0	224	34	18	18	28	1.94
1056966--1056996	15	2.1	15	93	0	53	12	22	16	48	1.80
1061058--1061083	13	2.0	13	100	0	52	30	15	15	38	1.88
1061143--1061215	20	3.6	20	81	3	101	31	17	13	36	1.89
1061122--1061198	21	3.7	21	77	6	86	28	16	11	42	1.84
1061122--1061215	41	2.3	41	94	3	163	29	18	12	39	1.88
1070601--1071945	59	23.3	59	89	5	1740	25	27	21	25	1.99
1072724--1072791	19	3.9	19	78	21	85	35	11	14	38	1.83
1072745--1072769	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)
1072726--1072788	32	2.0	32	96	0	117	34	12	15	36	1.86
1072831--1072856	13	2.0	13	100	0	52	30	15	15	38	1.88
1072811--1072877	33	2.0	33	88	0	98	25	14	16	43	1.86
1075223--1075773	52	10.4	52	70	13	246	30	25	11	32	1.91
1075215--1075773	105	5.3	106	71	12	333	30	25	11	32	1.91
1075495--1075565	27	2.6	27	84	13	92	25	33	19	21	1.97
1075756--1075838	28	3.0	28	78	7	89	22	33	18	25	1.96
1084664--1085508	42	20.1	42	82	2	845	14	29	17	37	1.90
1086020--1086064	19	2.4	19	88	0	63	75	0	2	22	0.91
1086113--1086176	31	2.1	31	90	0	101	39	18	26	15	1.91
1086669--1086743	35	2.1	35	85	4	98	30	37	16	16	1.90
1086781--1086935	46	3.3	46	80	1	175	29	33	12	24	1.93
1086915--1087084	73	2.3	73	81	7	177	26	37	16	20	1.93
1087164--1087232	29	2.5	28	83	6	88	24	43	15	15	1.87
1094825--1094862	13	2.9	13	96	0	67	31	15	18	34	1.92
1096946--1096976	15	2.1	15	93	0	53	12	22	16	48	1.80
1098746--1098790	21	2.1	21	84	8	56	22	20	4	53	1.63
1100672--1100730	32	1.9	30	83	13	75	59	10	10	20	1.58
1101012--1101037	13	2.0	13	100	0	52	30	15	15	38	1.88
1100991--1101055	32	2.0	33	93	6	114	27	12	15	44	1.82
1100991--1101055	19	3.6	19	73	26	70	27	12	15	44	1.82
1102404--1103004	154	3.9	153	75	7	475	38	18	17	25	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1104726--1104775	23	2.2	23	82	13	59	58	4	6	32	1.41
1104722--1104841	60	2.0	60	100	0	240	51	5	6	36	1.50
1107524--1107549	7	3.7	7	100	0	52	42	0	0	57	0.98
1108604--1108902	79	3.8	79	74	3	260	31	14	26	27	1.95
1108834--1108966	52	2.6	51	82	5	169	30	10	27	30	1.90
1111334--1111375	21	2.0	21	95	0	75	30	19	7	42	1.78
1111400--1111462	19	3.7	18	74	24	64	36	17	11	34	1.85
1111392--1111464	32	2.3	32	92	0	119	35	17	10	35	1.85
1115613--1115638	13	2.0	13	100	0	52	30	15	15	38	1.88
1115593--1115659	33	2.0	33	88	0	98	25	14	16	43	1.86
1118110--1118182	27	2.7	27	87	6	94	24	34	20	20	1.97
1122400--1122435	13	3.0	13	84	15	51	11	13	0	75	1.06
1122390--1122427	20	1.9	19	89	5	58	7	15	0	76	1.01
1123784--1123831	22	2.2	22	100	0	96	50	18	8	22	1.74
1133930--1133994	19	3.8	18	75	24	77	32	10	16	40	1.84
1133932--1134002	32	2.2	32	94	0	124	32	11	18	38	1.86
1134080--1134208	52	2.5	52	90	0	204	37	17	15	28	1.91
1139022--1139227	102	2.0	102	93	0	349	33	5	16	44	1.71
1140435--1140481	19	2.4	20	83	13	62	48	0	2	48	1.13
1140526--1140567	20	2.1	19	83	16	50	54	0	0	45	0.99
1140524--1140614	44	2.0	46	81	12	109	56	1	0	42	1.06
1144035--1144153	2	61.0	2	78	8	111	50	3	4	42	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1144684--1144764	6	13.2	6	73	10	65	6	16	2	75	1.11
1144731--1144760	14	2.1	15	93	6	53	13	6	3	76	1.11
1144862--1144912	15	3.4	15	83	5	68	35	9	0	54	1.33
1145718--1145746	12	2.4	12	100	0	58	13	10	27	48	1.75
1149405--1149441	4	9.2	4	93	0	65	0	27	0	72	0.84
1150924--1151048	40	2.9	42	78	16	98	56	3	2	38	1.29
1152109--1152253	51	2.8	50	79	10	150	57	4	2	35	1.29
1152420--1152492	22	3.3	22	77	7	60	46	8	6	38	1.60
1152459--1152523	32	2.0	32	82	5	78	44	3	7	44	1.48
1155781--1155857	20	3.8	20	81	6	93	40	11	16	31	1.85
1156613--1157170	52	10.8	52	77	10	470	38	1	5	54	1.34
1156671--1157289	105	5.8	103	75	15	437	38	1	5	54	1.32
1157157--1157199	19	2.3	19	95	0	77	44	0	16	39	1.48
1157105--1157247	69	2.0	70	85	10	195	37	0	9	51	1.40
1157176--1157329	51	3.1	49	81	11	172	37	0	6	55	1.30
1157215--1157329	49	2.3	50	85	7	144	35	0	5	58	1.27
1157850--1157904	20	2.8	20	88	0	83	41	10	16	30	1.83
1158984--1159009	13	2.0	13	100	0	52	38	15	15	30	1.88
1161229--1161273	21	2.1	21	84	8	56	53	4	20	22	1.63
1163077--1163107	15	2.1	15	93	0	53	48	16	22	12	1.80
1165186--1165224	13	3.0	13	100	0	78	30	15	15	38	1.88
1167772--1167797	13	2.0	13	100	0	52	38	15	15	30	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1168700--1168884	97	1.9	97	85	2	255	29	18	12	40	1.87
1170204--1170251	25	1.9	25	86	0	69	31	6	20	41	1.77
1170211--1170264	25	2.2	25	86	0	72	27	7	20	44	1.78
1172105--1172299	79	2.5	79	80	5	200	31	15	27	25	1.96
1172256--1172330	28	2.7	28	85	6	91	24	17	34	24	1.96
1172313--1172708	52	7.6	51	71	4	288	32	12	26	28	1.93
1172516--1172592	28	2.8	28	83	0	82	23	19	33	23	1.97
1172205--1172707	262	1.9	261	95	0	907	32	13	27	27	1.94
1175067--1175092	13	2.0	13	100	0	52	38	15	15	30	1.88
1175079--1175120	21	2.0	21	95	0	75	28	16	11	42	1.84
1175137--1175188	13	3.5	13	73	26	50	36	17	13	32	1.89
1175145--1175230	19	4.7	19	72	20	85	38	15	12	33	1.85
1175137--1175209	32	2.3	32	100	0	146	36	16	12	34	1.86
1175856--1175888	14	2.3	15	94	5	59	48	6	24	21	1.72
1178750--1178813	34	1.9	34	90	3	103	37	23	4	34	1.76
1179115--1179147	5	6.6	5	100	0	66	81	0	0	18	0.68
1183481--1183508	13	2.2	13	100	0	56	39	17	14	28	1.89
1183463--1183529	34	2.0	33	85	11	91	40	13	14	31	1.85
1183563--1183623	19	3.6	18	75	25	69	37	18	11	32	1.86
1183553--1183623	32	2.2	32	94	0	124	38	18	11	32	1.86
1185453--1185481	14	2.0	15	93	6	51	75	0	0	24	0.80
1185542--1185583	20	2.0	21	86	4	59	52	0	2	45	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1187101--1187723	79	7.9	77	72	11	318	32	13	26	27	1.94
1187394--1187464	28	2.5	29	80	13	94	25	19	30	23	1.98
1187451--1187566	51	2.3	51	87	3	162	31	12	25	29	1.93
1187101--1187723	158	3.9	157	71	10	444	32	13	26	27	1.94
1190716--1191191	61	7.9	61	82	5	511	27	19	26	26	1.99
1190716--1191191	123	3.9	121	83	5	545	27	19	26	26	1.99
1190715--1191136	184	2.3	183	88	1	630	27	19	27	26	1.99
1191233--1191415	55	3.3	55	90	0	258	23	20	25	30	1.99
1191305--1191393	29	3.2	28	63	15	67	28	19	24	28	1.98
1191019--1191487	204	2.3	204	88	4	672	27	18	26	27	1.98

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   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38