genome.fa.s170.2.7.7.80.10.50.1000.7.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: Scaffold170
Parameters: 2 7 7 80 10 50 1000
Length:  1632119

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

This is table  7  of  11  ( 1308 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)
1048808--1048858	16	3.1	17	77	11	52	39	1	3	54	1.30
1053205--1053290	44	2.0	44	88	0	127	37	11	15	36	1.83
1058996--1059029	6	5.7	6	92	0	50	52	35	11	0	1.38
1059569--1059611	21	2.0	23	86	9	63	55	6	0	37	1.27
1059685--1059730	2	23.5	2	80	12	51	41	2	2	54	1.25
1060152--1060189	20	1.9	19	89	5	58	31	2	0	65	1.06
1060274--1060316	19	2.4	18	82	14	54	46	2	2	48	1.27
1063544--1063578	18	1.9	18	88	0	52	57	2	2	37	1.29
1065126--1065158	15	2.2	15	94	0	57	33	12	9	45	1.73
1065825--1065865	2	20.5	2	94	0	73	53	0	46	0	1.00
1071788--1071812	6	4.2	6	100	0	50	16	0	36	48	1.46
1071810--1071840	14	2.2	14	100	0	62	54	0	45	0	0.99
1072318--1072366	25	2.0	24	88	4	71	59	0	0	40	0.98
1072346--1072414	31	2.3	29	83	14	79	42	0	0	57	0.98
1072800--1072851	27	2.0	27	85	11	72	63	3	7	25	1.38
1073854--1073892	19	2.0	20	90	5	62	51	5	10	33	1.58
1080568--1080606	2	19.5	2	100	0	78	51	0	0	48	1.00
1082123--1082199	28	2.9	26	75	11	66	37	1	1	59	1.14
1082123--1082191	28	2.5	27	77	11	68	37	1	1	59	1.15
1082144--1082236	45	2.1	44	82	11	111	35	1	2	61	1.15
1082144--1082248	30	3.5	30	79	8	92	33	0	1	63	1.11
1082146--1082239	15	6.5	14	76	14	84	34	1	2	62	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1083026--1083058	17	1.9	17	88	11	50	24	0	0	75	0.80
1083556--1083610	20	2.7	19	78	10	56	56	0	3	40	1.17
1083748--1083787	21	1.9	21	85	10	55	40	12	5	42	1.64
1084113--1084148	18	2.0	18	88	0	54	27	0	0	72	0.85
1084441--1084490	26	1.9	26	88	8	75	42	0	0	58	0.98
1084448--1084517	25	2.8	27	77	18	71	44	0	0	55	0.99
1084770--1084818	11	4.6	11	82	5	57	61	2	2	34	1.19
1085314--1085380	26	2.6	25	73	17	66	53	0	4	41	1.21
1085402--1085518	60	2.0	60	82	1	146	53	5	8	32	1.53
1085700--1085815	41	3.0	35	68	25	99	33	2	2	61	1.23
1085661--1085815	80	1.9	80	98	0	301	31	3	2	62	1.24
1087495--1087977	48	10.2	48	89	4	666	26	40	11	21	1.87
1088010--1088160	21	7.2	21	75	0	131	19	48	9	22	1.77
1088021--1088160	42	3.3	42	93	0	226	18	49	9	22	1.76
1088021--1088229	42	4.8	42	83	7	161	20	51	8	20	1.72
1088021--1088184	84	2.0	84	82	2	204	18	50	9	21	1.74
1088318--1088370	24	2.2	24	93	0	88	16	58	3	20	1.54
1088259--1088479	108	2.0	108	95	0	397	21	54	5	18	1.63
1088426--1088607	21	8.2	24	68	17	133	21	51	4	21	1.67
1088453--1088692	21	11.3	21	79	3	230	22	49	6	22	1.72
1088423--1088692	87	3.1	84	83	4	324	22	50	5	21	1.70
1088423--1088692	63	4.2	63	78	5	245	22	50	5	21	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1088273--1088691	108	3.9	107	81	4	305	21	51	5	21	1.69
1088423--1088692	42	6.3	42	83	3	315	22	50	5	21	1.70
1091109--1091174	26	2.6	25	78	9	62	46	3	6	43	1.43
1091977--1092023	14	3.4	14	76	8	51	48	0	2	48	1.13
1093955--1094001	16	3.0	15	81	9	58	63	0	2	34	1.06
1094038--1094080	20	2.1	19	83	12	50	51	0	0	48	1.00
1095333--1095382	23	2.2	23	85	7	66	56	0	2	42	1.11
1095667--1095815	14	10.9	14	63	21	57	56	1	2	40	1.19
1095658--1095707	25	2.0	25	100	0	100	60	4	0	36	1.16
1095730--1095829	19	5.3	18	75	17	62	60	0	0	40	0.97
1095724--1095815	28	3.1	29	84	10	98	59	0	0	40	0.97
1095763--1095830	15	4.0	18	72	18	65	63	0	0	36	0.95
1095729--1095828	47	2.1	47	80	7	114	60	0	0	40	0.97
1095765--1095837	28	3.0	23	69	21	58	63	1	0	35	1.04
1096095--1096157	30	2.1	29	85	11	83	44	0	0	55	0.99
1096373--1096431	20	3.0	20	77	5	57	42	1	0	55	1.09
1096397--1096436	21	2.0	21	85	5	55	35	5	0	60	1.19
1096629--1096691	25	2.5	25	76	20	69	66	0	1	31	1.01
1096640--1096692	26	2.1	24	86	10	70	69	0	0	30	0.88
1097673--1097738	22	2.9	24	78	15	68	50	0	0	50	1.00
1097732--1097773	20	2.0	22	86	9	61	57	0	0	42	0.99
1099456--1099489	6	5.8	6	89	3	52	67	0	0	32	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1099796--1099846	6	8.5	6	82	8	59	41	0	0	58	0.98
1099766--1099833	25	2.7	26	77	13	86	45	1	1	51	1.19
1099909--1099939	14	2.2	14	94	0	53	54	0	0	45	0.99
1099924--1099993	9	8.2	9	72	22	62	42	0	1	55	1.08
1099925--1099984	17	3.5	17	80	13	70	45	0	1	53	1.10
1099924--1099993	17	4.1	17	78	14	65	42	0	1	55	1.08
1099925--1099989	33	2.0	33	88	8	98	44	0	1	53	1.09
1100084--1100150	13	4.0	17	76	21	54	49	1	0	49	1.10
1106407--1106454	25	2.0	24	87	4	69	39	0	0	60	0.97
1106428--1106484	19	2.7	21	76	17	57	45	0	0	54	0.99
1106430--1106478	20	2.5	20	80	9	57	44	0	0	55	0.99
1107839--1107868	16	1.9	16	93	6	53	56	0	0	43	0.99
1107799--1107884	29	3.2	25	74	12	66	61	0	1	37	1.04
1107799--1107883	43	2.0	40	82	13	100	62	0	1	36	1.03
1108145--1108174	15	2.0	15	93	0	51	43	0	6	50	1.28
1108375--1108407	8	4.2	8	84	7	50	24	0	0	75	0.80
1108372--1108408	15	2.5	15	91	8	58	29	0	0	70	0.88
1108851--1108879	3	9.7	3	100	0	58	34	0	0	65	0.93
1117644--1117700	29	1.9	30	86	10	82	52	0	0	47	1.00
1117751--1118007	126	2.1	124	89	2	392	54	1	2	42	1.21
1124032--1124170	41	3.4	41	83	0	197	23	25	15	35	1.94
1125157--1125208	19	2.6	19	78	6	59	80	0	11	7	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1125169--1125214	19	2.2	21	77	11	51	80	0	10	8	0.91
1130345--1130399	6	9.2	6	76	21	53	63	1	0	34	1.05
1130324--1130400	15	5.3	15	72	12	52	55	2	0	41	1.13
1131783--1131832	21	2.3	22	83	13	59	42	2	0	56	1.11
1133995--1134033	20	2.1	18	85	9	51	46	2	0	51	1.14
1145150--1145192	22	2.0	21	82	13	52	30	0	6	62	1.21
1145270--1145322	20	2.8	19	83	10	65	39	0	0	60	0.97
1145391--1145430	21	2.0	20	85	5	53	52	2	2	42	1.28
1145969--1146015	19	2.5	18	80	10	58	42	2	2	53	1.25
1146939--1146973	3	12.0	3	87	6	54	68	0	0	31	0.90
1147741--1147851	55	2.0	55	100	0	222	29	16	19	34	1.94
1147895--1147925	15	2.1	15	93	0	53	77	0	0	22	0.77
1148341--1148381	19	2.0	21	86	9	59	51	0	4	43	1.23
1148618--1148645	2	14.0	2	100	0	56	50	0	0	50	1.00
1148653--1148686	6	5.7	6	92	0	59	50	0	50	0	1.00
1149491--1149521	3	10.3	3	100	0	62	64	0	0	35	0.94
1150021--1150045	6	4.2	6	100	0	50	84	0	0	16	0.63
1150512--1150538	2	13.5	2	100	0	54	51	0	0	48	1.00
1150740--1150783	18	2.4	19	80	7	54	47	2	0	50	1.13
1150835--1150884	16	3.1	16	75	18	50	68	0	2	30	1.01
1153117--1153154	20	1.9	20	84	10	51	50	10	0	39	1.37
1157391--1157440	26	1.9	26	83	0	64	40	0	0	60	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1157693--1157734	17	2.5	17	82	14	52	47	4	2	45	1.36
1157909--1157985	37	2.1	36	87	2	109	35	16	15	32	1.91
1160123--1160172	19	2.6	20	75	18	52	60	4	2	34	1.27
1160159--1160213	28	1.9	29	88	3	85	43	9	1	45	1.46
1163425--1163523	49	2.1	47	83	7	119	44	0	0	55	0.99
1163719--1163763	24	1.9	23	86	4	63	35	2	2	60	1.22
1166581--1166606	11	2.4	11	100	0	52	0	7	0	92	0.39
1166687--1166771	35	2.4	36	81	13	95	50	0	1	48	1.08
1166732--1166758	10	2.7	10	100	0	54	44	0	0	55	0.99
1167328--1167357	14	2.1	15	93	6	53	70	6	0	23	1.11

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