genome.fa.s128.2.7.7.80.10.50.1000.6.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: Scaffold128
Parameters: 2 7 7 80 10 50 1000
Length:  1835488

Tables:   1   2   3   4   5   6   7   8   9   10   11   

This is table  6  of  11  ( 1217 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)
1021739--1021803	19	3.7	19	71	23	70	38	15	12	33	1.85
1021732--1021801	32	2.2	32	92	0	122	37	15	12	34	1.86
1022669--1023367	43	15.1	43	76	13	590	31	18	25	24	1.97
1022812--1023367	92	6.1	92	88	4	672	31	18	25	23	1.97
1022616--1023367	184	4.0	183	82	10	839	32	18	25	24	1.97
1023362--1023428	33	2.0	33	94	0	116	19	16	34	29	1.94
1023362--1023440	33	2.4	33	87	2	106	18	17	36	26	1.94
1023433--1023782	34	10.7	34	80	9	320	34	12	32	21	1.91
1023460--1023874	92	4.3	95	83	9	384	33	13	30	22	1.92
1023435--1024002	31	17.9	31	78	11	352	33	14	30	22	1.93
1023637--1023987	92	3.8	92	86	7	396	31	15	29	23	1.96
1023699--1023997	155	1.9	154	90	2	474	29	16	29	25	1.96
1025289--1025330	12	3.6	12	77	6	50	0	2	16	80	0.81
1025289--1025328	16	2.4	17	87	8	55	0	2	15	82	0.77
1033309--1033565	130	2.0	130	80	6	297	28	24	12	35	1.91
1033420--1033648	79	2.9	78	78	1	235	27	26	14	32	1.95
1047043--1047464	62	6.8	61	89	3	571	24	26	19	29	1.98
1047043--1047793	124	6.2	121	83	7	897	24	26	19	29	1.99
1047471--1047796	61	5.3	61	86	4	424	23	26	20	28	1.99
1047471--1047796	123	2.7	121	83	7	442	23	26	20	28	1.99
1047790--1048115	41	7.8	40	70	14	178	21	25	11	42	1.86
1047790--1048093	83	3.6	85	76	12	270	20	25	11	43	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1047937--1048118	83	2.2	83	78	5	190	24	23	14	38	1.91
1051880--1051991	51	2.2	51	82	6	138	32	14	25	27	1.95
1051845--1052119	130	2.1	129	82	7	326	34	13	24	27	1.93
1052010--1052133	50	2.5	50	84	4	151	37	12	22	26	1.90
1057750--1057793	20	2.1	22	91	8	74	29	9	20	40	1.83
1057847--1057872	13	2.0	13	100	0	52	30	15	15	38	1.88
1057827--1057890	33	2.0	32	87	9	94	28	14	17	40	1.88
1057827--1057890	32	2.0	33	87	9	96	28	14	17	40	1.88
1058967--1059025	11	5.5	11	84	15	72	76	1	22	0	0.88
1058968--1059023	9	5.5	10	81	14	53	75	1	23	0	0.90
1059527--1059571	9	4.6	10	75	25	51	75	0	22	2	0.91
1066472--1067173	150	4.7	151	87	3	816	37	19	18	24	1.94
1067793--1067817	13	1.9	13	100	0	50	40	12	16	32	1.84
1068675--1068734	26	2.3	25	78	15	68	3	16	13	66	1.37
1068707--1068748	20	2.0	21	86	4	59	2	11	16	69	1.29
1068893--1068951	29	2.0	29	83	6	75	0	16	15	67	1.23
1076271--1077035	156	5.0	156	83	4	822	24	16	20	38	1.92
1077964--1078019	21	2.8	21	72	5	62	39	14	14	32	1.86
1080450--1080500	27	1.9	26	92	4	84	25	27	17	29	1.98
1081367--1081429	33	1.9	33	90	6	101	33	11	17	38	1.85
1082487--1082511	13	1.9	13	100	0	50	36	16	16	32	1.90
1082467--1082532	32	2.0	33	94	2	116	36	12	15	36	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1082613--1082697	41	2.0	45	90	9	142	38	17	15	28	1.90
1096550--1096591	19	2.2	19	91	0	66	88	11	0	0	0.53
1096550--1096603	22	2.4	23	84	9	76	85	14	0	0	0.61
1096552--1096594	16	2.8	16	89	10	63	88	11	0	0	0.52
1096552--1096585	1	34.0	1	87	0	50	94	5	0	0	0.32
1098042--1098363	29	10.7	29	77	10	215	29	28	15	26	1.96
1098036--1098208	88	2.0	86	86	6	242	28	31	16	23	1.96
1098193--1098267	35	2.2	35	85	2	107	21	32	10	36	1.88
1098193--1098284	35	2.7	35	81	5	98	20	30	11	36	1.89
1098258--1098368	28	3.9	28	87	2	150	35	27	17	19	1.94
1098429--1098848	43	9.1	43	77	13	399	26	24	17	32	1.97
1098429--1098901	93	5.0	92	89	3	669	26	24	16	32	1.96
1098802--1098955	52	2.9	53	80	4	184	24	23	15	36	1.94
1099714--1099770	13	3.9	13	76	24	60	35	14	17	33	1.90
1099692--1099789	19	5.8	18	70	28	81	35	12	15	36	1.85
1099694--1099791	32	3.0	32	93	1	160	36	12	15	35	1.85
1099865--1099994	52	2.5	52	97	0	242	35	17	16	30	1.93
1108301--1108326	13	2.0	13	100	0	52	30	15	15	38	1.88
1108755--1108799	20	2.1	22	88	8	67	20	37	26	15	1.92
1110832--1110911	33	2.4	33	97	0	151	41	12	13	32	1.82
1110849--1110912	20	3.6	19	68	27	59	40	12	14	32	1.83
1116202--1116273	28	2.6	27	78	6	72	45	19	15	19	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1116889--1117070	32	5.7	32	81	7	174	30	30	18	20	1.96
1116889--1117055	65	2.6	63	82	6	201	30	32	17	19	1.95
1117209--1117396	104	1.8	104	84	0	259	23	20	17	38	1.93
1117209--1117400	52	3.7	52	76	0	186	23	20	17	38	1.93
1117558--1117693	61	2.2	62	83	8	163	25	21	9	43	1.83
1125295--1125357	32	1.9	33	87	9	94	30	19	14	36	1.91
1127504--1127549	20	2.2	22	88	7	69	69	0	15	15	1.19
1127581--1127621	21	2.0	21	90	9	66	53	9	17	19	1.70
1134543--1134606	31	2.0	32	84	3	85	20	14	10	54	1.69
1135203--1135259	19	2.9	19	84	2	69	31	12	19	36	1.89
1135291--1135355	33	2.0	33	84	6	87	32	13	15	38	1.87
1141269--1141312	21	2.1	21	86	0	61	20	0	25	54	1.45
1143956--1143982	13	2.1	13	100	0	54	29	14	14	40	1.86
1143966--1144013	19	2.5	19	82	3	60	31	12	18	37	1.88
1146499--1146538	17	2.4	17	87	4	55	70	2	17	10	1.27
1154819--1154947	52	2.5	52	93	0	213	30	17	17	34	1.94
1154819--1154967	52	2.9	51	88	4	201	31	17	18	32	1.94
1154956--1155014	13	4.9	13	69	26	58	33	13	18	33	1.90
1154954--1155035	34	2.4	34	100	0	164	32	12	20	34	1.90
1155056--1155122	19	3.8	19	74	24	74	35	16	11	35	1.86
1155075--1155100	13	2.0	13	100	0	52	30	15	15	38	1.88
1155052--1155120	32	2.1	33	94	2	122	34	17	11	36	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1155909--1156301	52	8.1	49	82	10	459	31	18	27	22	1.97
1156021--1156306	43	6.1	44	76	16	256	30	18	28	22	1.97
1155918--1156301	145	2.6	144	92	2	651	30	19	27	22	1.98
1156301--1156462	33	4.9	33	89	7	267	18	18	35	27	1.94
1156294--1156462	65	2.6	66	91	7	276	17	18	35	28	1.94
1156453--1156983	34	16.2	33	75	12	362	31	12	36	19	1.89
1156736--1157047	61	5.0	62	81	11	302	31	12	35	20	1.90
1156468--1157043	95	5.9	98	85	4	631	31	12	35	19	1.90
1158364--1158421	31	1.9	31	89	3	91	3	1	13	81	0.91
1165404--1165428	13	1.9	13	100	0	50	36	16	16	32	1.90
1165471--1165568	19	5.8	18	67	28	72	37	18	10	33	1.84
1165466--1165566	32	3.1	32	94	1	166	36	18	9	34	1.84
1169155--1169783	156	4.0	155	79	7	585	24	17	18	39	1.92
1173372--1173571	87	2.3	88	80	4	217	19	25	15	40	1.90
1173340--1173795	131	3.5	132	83	2	506	20	24	15	39	1.91
1173327--1173873	44	12.4	43	70	9	246	20	23	16	39	1.92
1175378--1175680	156	2.0	151	84	3	390	32	7	8	51	1.61
1177049--1177575	167	3.2	164	83	5	607	34	10	14	41	1.79
1181690--1181727	13	2.9	13	96	0	67	31	15	18	34	1.92
1183804--1183838	15	2.2	16	90	5	54	14	20	14	51	1.76
1187900--1187925	13	2.0	13	100	0	52	30	15	15	38	1.88
1187880--1187943	33	2.0	32	87	9	94	29	15	17	37	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1190027--1190120	9	9.7	9	72	21	66	1	3	12	82	0.83
1190027--1190120	18	5.4	17	77	10	82	1	3	12	82	0.83
1203792--1203830	21	1.9	20	94	5	69	30	12	20	35	1.90
1204512--1204585	21	3.6	20	76	7	60	40	10	17	31	1.84
1204512--1204556	20	2.2	21	84	11	58	42	6	17	33	1.76
1204621--1204739	52	2.3	52	91	0	184	31	17	11	39	1.86
1208400--1208449	19	2.6	19	93	0	82	36	14	14	36	1.86
1208502--1208527	13	2.0	13	100	0	52	30	23	15	30	1.95
1208482--1208548	34	2.0	33	91	2	107	25	19	13	41	1.88
1210863--1211257	51	7.6	51	71	9	262	28	28	12	30	1.93

Tables:   1   2   3   4   5   6   7   8   9   10   11