genome.fa.s79.2.7.7.80.10.50.1000.8.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: Scaffold79
Parameters: 2 7 7 80 10 50 1000
Length:  4189514

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   

This is table  8  of  26  ( 3105 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)
1070144--1070180	19	2.0	19	89	5	58	16	8	2	72	1.19
1070646--1070684	20	2.0	20	94	0	69	56	12	0	30	1.37
1072803--1072832	5	5.8	5	92	7	51	23	0	0	76	0.78
1072803--1072832	11	2.9	10	90	9	51	23	0	0	76	0.78
1073505--1073545	15	2.7	15	88	3	55	53	0	0	46	1.00
1079253--1079294	19	2.2	19	100	0	84	9	26	30	33	1.88
1082324--1082384	30	2.1	29	84	9	79	42	0	14	42	1.46
1082680--1082740	22	2.8	22	70	20	56	37	4	0	57	1.20
1088479--1088523	23	1.9	24	86	4	65	48	2	0	48	1.13
1088475--1088532	23	2.5	23	75	10	64	51	1	0	46	1.11
1088658--1088710	22	2.5	20	81	9	61	49	1	1	47	1.23
1088658--1088709	20	2.5	22	84	6	63	50	1	1	46	1.23
1088711--1088791	38	2.1	39	86	6	112	33	2	1	62	1.16
1089513--1089626	20	5.8	20	72	22	91	46	0	0	53	1.00
1089503--1089576	15	4.7	15	71	28	57	47	0	0	52	1.00
1089533--1089629	33	2.9	33	75	15	94	45	0	0	54	0.99
1089518--1089619	38	2.8	36	76	20	88	48	0	0	51	1.00
1089934--1089979	17	2.6	19	73	16	53	43	0	0	56	0.99
1090503--1090541	2	19.5	2	100	0	78	51	0	0	48	1.00
1091058--1091107	2	25.0	2	91	0	82	52	2	0	46	1.12
1091076--1091230	72	2.2	72	96	0	283	44	7	10	38	1.66
1091143--1091178	18	2.0	18	94	0	63	52	11	0	36	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1099371--1099409	20	1.9	21	89	5	62	43	12	10	33	1.77
1100075--1100785	381	1.9	380	84	2	935	35	17	13	32	1.89
1109439--1109465	2	13.5	2	100	0	54	48	0	0	51	1.00
1110245--1110283	20	2.0	20	85	10	53	48	0	0	51	1.00
1110302--1110367	17	3.8	16	74	20	60	36	1	0	62	1.05
1110509--1110611	19	5.0	20	71	18	86	40	0	0	59	0.98
1110540--1110623	26	3.2	26	77	14	84	42	1	0	55	1.07
1110560--1110691	60	2.2	60	77	11	146	40	3	0	56	1.18
1111673--1111707	3	11.7	3	100	0	70	34	0	0	65	0.93
1111790--1111827	2	19.0	2	94	0	67	47	2	0	50	1.15
1112150--1112196	22	2.1	22	100	0	76	38	4	12	44	1.62
1112530--1112564	16	2.1	16	89	5	52	65	0	0	34	0.93
1113342--1113437	42	2.2	44	81	9	117	52	0	0	47	1.00
1114234--1114290	23	2.7	21	73	10	53	47	0	0	52	1.00
1115216--1115257	5	8.4	5	89	0	66	33	0	0	66	0.92
1115756--1115804	20	2.5	19	77	9	53	53	0	0	46	1.00
1118801--1118833	13	2.5	13	95	0	57	57	9	12	21	1.62
1119540--1119599	29	2.1	29	84	9	79	31	10	0	58	1.31
1121956--1122099	45	3.2	44	84	3	155	26	29	29	13	1.94
1122016--1122116	45	2.2	45	92	0	175	21	24	34	18	1.96
1126729--1126852	52	2.4	51	94	1	212	28	17	18	35	1.94
1126729--1126872	52	2.8	51	88	5	202	29	17	18	34	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1126861--1126885	13	1.9	13	100	0	50	36	16	16	32	1.90
1126924--1126981	20	3.0	20	84	2	73	46	12	10	31	1.74
1127700--1127767	32	2.1	33	83	2	84	35	4	4	55	1.40
1130345--1130374	5	6.0	5	100	0	60	60	0	0	40	0.97
1131153--1131191	20	2.0	19	90	5	60	56	0	0	43	0.99
1135187--1135212	2	13.0	2	100	0	52	50	0	0	50	1.00
1135932--1135995	19	3.5	19	79	12	62	57	0	0	42	0.98
1136280--1136311	2	16.0	2	100	0	64	0	50	0	50	1.00
1138408--1138449	14	2.8	15	78	10	50	54	0	0	45	0.99
1138461--1138493	13	2.4	14	90	5	50	57	0	0	42	0.98
1139388--1139467	27	3.0	27	82	10	76	70	1	1	27	1.03
1139428--1139477	16	3.0	17	82	8	50	72	0	2	26	0.96
1139418--1139477	27	2.3	27	82	8	70	71	0	1	26	0.95
1140945--1141018	32	2.4	31	86	4	96	51	2	5	40	1.39
1141798--1141848	21	2.4	21	87	6	68	52	3	7	35	1.49
1141901--1141974	20	3.7	20	80	8	78	50	5	1	43	1.33
1141937--1141975	11	3.7	11	83	13	55	53	2	0	43	1.14
1141957--1142005	20	2.4	21	93	3	82	59	10	0	30	1.31
1142336--1142377	20	2.1	20	86	0	57	45	4	2	47	1.36
1142368--1142424	21	2.7	21	91	0	87	54	5	3	36	1.40
1145901--1145938	17	2.2	17	90	0	58	47	5	0	47	1.24
1146533--1146581	9	5.0	9	79	16	53	40	0	2	57	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1146503--1146567	20	3.2	20	82	4	76	29	0	9	61	1.27
1146523--1146567	21	2.1	21	91	0	72	31	0	4	64	1.13
1146560--1146694	21	6.4	21	73	8	76	34	4	7	54	1.49
1146758--1146813	21	2.7	21	88	0	76	51	5	1	41	1.35
1146975--1147022	21	2.2	22	85	10	64	35	2	6	56	1.36
1147029--1147075	21	2.2	21	85	7	60	36	6	6	51	1.53
1157606--1157637	3	10.7	3	93	0	55	65	0	34	0	0.93
1158286--1158328	21	2.0	21	86	8	61	60	0	0	39	0.97
1164883--1164930	20	2.3	21	82	13	55	39	4	2	54	1.32
1165898--1166251	50	7.1	50	85	0	386	31	15	17	34	1.92
1170599--1170809	50	4.2	50	85	2	280	29	16	21	33	1.95
1172776--1172819	22	2.0	22	100	0	88	40	4	0	54	1.21
1172840--1172876	10	3.8	10	86	13	51	40	16	2	40	1.62
1176505--1176530	12	2.2	12	100	0	52	30	0	0	69	0.89
1178095--1178121	13	2.1	13	100	0	54	48	0	0	51	1.00
1178470--1178502	17	2.0	17	94	5	59	54	3	0	42	1.15
1178571--1178677	51	2.2	48	79	18	114	47	1	1	48	1.23
1178576--1178677	24	4.0	23	71	16	69	48	1	1	48	1.24
1178703--1178729	10	2.7	10	100	0	54	40	0	0	59	0.98
1178857--1178909	15	3.2	15	72	23	52	52	0	1	45	1.11
1178876--1178963	15	6.5	13	71	19	56	44	2	4	48	1.35
1179025--1179057	12	2.8	12	90	4	50	81	0	0	18	0.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1179115--1179147	15	2.2	15	100	0	66	42	0	0	57	0.98
1179582--1179619	18	2.1	19	85	9	53	47	2	0	50	1.15
1179609--1179663	25	2.4	23	80	16	69	41	0	1	56	1.10
1179617--1179663	25	2.0	25	87	8	71	44	0	2	53	1.12
1179599--1179708	22	4.9	21	68	17	53	45	0	1	52	1.11
1179964--1180007	23	2.0	21	86	8	61	52	2	2	43	1.26
1180007--1180045	16	2.3	18	82	8	55	56	0	2	41	1.13
1185664--1185761	42	2.3	42	83	0	124	43	2	18	35	1.62
1186082--1186110	14	2.0	15	93	6	51	37	0	0	62	0.96
1187178--1187217	14	3.1	12	83	16	53	50	0	0	50	1.00
1188044--1188100	25	2.3	25	77	19	66	61	1	0	36	1.07
1188044--1188101	24	2.4	24	83	13	66	60	1	0	37	1.07
1191079--1191127	2	24.5	2	79	8	55	46	2	2	48	1.25
1191998--1192030	14	2.5	14	90	9	52	45	0	0	54	0.99
1192455--1192490	16	2.1	17	90	10	56	52	2	5	38	1.39
1192473--1192564	7	13.0	7	83	2	112	45	1	3	50	1.25
1198590--1198623	7	5.0	7	85	7	52	14	0	0	85	0.60
1198595--1198624	13	2.4	13	94	5	53	16	0	0	83	0.65
1201757--1201806	20	2.5	20	81	15	59	56	0	0	44	0.99
1201765--1201807	20	2.2	19	88	12	61	51	0	0	48	1.00
1201776--1201816	20	2.0	20	85	0	55	46	4	2	46	1.37
1205073--1205102	1	30.0	1	100	0	60	100	0	0	0	0.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1207964--1207992	13	2.2	13	100	0	58	93	0	6	0	0.36
1208250--1208285	18	2.0	18	89	10	56	44	5	0	50	1.25
1208277--1208308	17	1.9	16	93	6	55	46	0	0	53	1.00
1208830--1208901	26	2.8	25	81	10	83	51	0	0	48	1.00
1215355--1215381	2	13.5	2	100	0	54	48	0	51	0	1.00
1221807--1221837	11	2.8	11	90	0	53	87	0	12	0	0.55
1222400--1222463	19	3.3	18	75	14	56	62	0	3	34	1.11
1222501--1222542	19	2.2	19	87	8	59	35	0	2	61	1.09
1222543--1222580	18	2.2	17	86	9	51	68	0	0	31	0.90
1223409--1223450	19	2.2	20	87	8	61	50	9	0	40	1.35

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