genome.fa.s145.2.7.7.80.10.50.1000.6.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: Scaffold145
Parameters: 2 7 7 80 10 50 1000
Length:  2608604

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   

This is table  6  of  15  ( 1729 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)
1092507--1093866	392	3.4	394	97	1	2485	32	17	26	23	1.96
1093878--1093970	33	2.8	33	93	6	163	15	19	36	29	1.92
1093972--1094543	36	15.9	35	73	15	361	33	12	33	20	1.90
1094176--1094543	34	10.7	33	80	13	404	31	12	34	21	1.91
1094176--1094545	103	3.6	102	80	13	418	31	12	34	21	1.91
1094489--1094667	62	2.8	63	83	9	199	26	17	31	24	1.97
1094523--1094667	31	4.7	31	83	10	172	24	18	31	25	1.98
1094662--1094697	13	2.8	13	91	4	56	8	5	5	80	1.01
1094681--1094706	9	2.9	9	100	0	52	7	0	0	92	0.39
1094665--1094708	13	3.4	13	87	6	54	6	2	2	88	0.67
1095652--1095686	15	2.3	15	90	9	54	0	8	2	88	0.61
1102931--1103051	52	2.3	52	97	0	224	28	18	18	34	1.94
1102931--1103071	52	2.7	51	90	4	212	30	17	18	33	1.94
1103060--1103084	13	1.9	13	100	0	50	36	16	16	32	1.90
1103151--1103175	13	1.9	13	100	0	50	32	16	16	36	1.90
1103129--1103195	33	2.0	33	88	0	98	40	13	11	34	1.81
1106226--1106269	19	2.3	19	84	0	61	38	20	2	38	1.65
1111766--1111833	27	2.3	31	73	23	74	52	0	1	45	1.09
1111780--1111834	27	2.0	28	86	13	78	54	0	1	43	1.10
1111780--1111846	28	2.4	26	81	16	73	53	1	1	43	1.19
1111849--1111886	19	2.0	19	85	10	51	60	0	0	39	0.97
1113274--1113315	14	2.9	15	82	13	61	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1115604--1115647	10	4.9	10	76	23	53	47	0	0	52	1.00
1117956--1117990	14	2.6	13	86	8	52	68	2	0	28	1.04
1118807--1118837	14	2.3	13	94	5	53	77	0	0	22	0.77
1120176--1120212	19	1.9	19	89	10	58	64	2	0	32	1.07
1120172--1120214	19	2.5	17	75	17	52	67	2	0	30	1.03
1120201--1120259	25	2.4	25	78	16	68	45	3	1	49	1.28
1120466--1120511	13	3.7	13	80	8	51	65	4	0	30	1.12
1128481--1128514	13	2.6	14	86	13	54	58	0	0	41	0.98
1128847--1128885	2	19.5	2	89	0	60	43	2	2	51	1.29
1131451--1131499	26	2.0	24	88	8	71	42	0	0	57	0.99
1135005--1135074	35	2.0	35	100	0	140	31	28	2	37	1.72
1136266--1136297	2	16.0	2	100	0	64	50	0	0	50	1.00
1136700--1136751	23	2.1	23	86	13	68	51	0	0	48	1.00
1138245--1138297	20	2.7	20	82	5	63	54	1	0	43	1.11
1143975--1144161	95	2.0	94	91	1	302	35	18	12	33	1.89
1145358--1145400	16	2.7	15	79	10	50	79	0	0	20	0.74
1146244--1146292	16	3.0	16	79	5	53	77	0	0	22	0.77
1146258--1146298	9	4.7	9	84	6	57	78	0	0	21	0.76
1153249--1153283	2	17.5	2	100	0	70	51	0	0	48	1.00
1153417--1153451	3	11.7	3	100	0	70	68	0	0	31	0.90
1153643--1153809	5	34.4	5	63	22	54	40	0	1	58	1.06
1153747--1153803	25	2.3	26	82	11	66	36	0	0	63	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1155607--1155702	49	2.0	47	84	15	124	25	15	18	40	1.90
1156380--1156412	12	2.8	12	95	0	57	21	39	12	27	1.88
1161025--1161084	6	9.7	6	73	20	52	46	0	1	51	1.10
1161025--1161057	17	1.9	17	93	0	57	39	0	3	57	1.14
1161027--1161065	17	2.3	17	86	0	51	43	0	2	53	1.14
1161074--1161126	21	2.6	20	85	11	72	39	0	0	60	0.97
1161116--1161163	18	2.5	20	90	10	73	62	2	0	35	1.07
1161822--1161928	11	10.5	11	70	21	56	56	0	0	42	1.05
1161865--1161908	20	2.2	20	84	12	54	52	0	0	47	1.00
1166990--1167083	47	2.0	47	83	12	120	47	0	4	47	1.21
1167390--1167422	17	1.9	17	88	11	50	51	0	0	48	1.00
1168089--1168129	21	1.9	22	90	5	66	46	0	0	53	1.00
1169800--1169834	15	2.2	16	90	10	54	25	0	2	71	1.00
1170035--1170123	31	2.9	30	82	12	119	44	0	1	53	1.07
1170064--1170146	46	1.9	46	83	11	113	39	1	0	59	1.05
1170035--1170150	61	1.9	61	82	10	148	41	0	0	56	1.11
1170328--1170388	27	2.3	27	83	8	72	59	16	3	21	1.51
1170413--1170438	9	2.9	9	100	0	52	57	0	0	42	0.98
1170860--1170909	21	2.5	20	80	9	57	56	2	0	42	1.11
1171750--1171796	18	2.7	18	83	3	60	65	0	0	34	0.93
1175731--1175755	8	3.1	8	100	0	50	40	36	12	12	1.79
1179240--1179272	1	33.0	1	93	0	57	0	96	0	3	0.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1183693--1183750	18	3.1	18	78	14	64	60	0	0	39	0.97
1183693--1183764	17	4.0	18	75	16	51	58	0	0	41	0.98
1184087--1184116	2	15.0	2	92	0	51	53	0	0	46	1.00
1186615--1186678	32	2.0	33	90	3	103	46	0	1	51	1.10
1186990--1187043	10	5.4	10	84	0	54	51	7	0	40	1.30
1187013--1187041	2	14.5	2	100	0	58	51	0	0	48	1.00
1188578--1188681	39	2.6	41	82	8	119	39	0	3	56	1.17
1188717--1188768	22	2.5	20	77	14	61	36	3	3	55	1.36
1188794--1188884	30	3.2	29	75	18	77	56	5	0	38	1.23
1188808--1188895	30	3.0	28	73	18	65	57	5	0	36	1.22
1188998--1189091	42	2.2	43	94	3	163	59	2	21	17	1.47
1196800--1196842	14	2.9	14	82	6	50	48	0	0	51	1.00
1198289--1198325	4	9.2	4	93	0	65	0	21	24	54	1.45
1198991--1199091	15	6.7	15	68	18	59	53	1	1	42	1.23
1199058--1199105	20	2.4	18	80	16	51	54	0	0	45	0.99
1199373--1199398	2	13.0	2	100	0	52	0	50	0	50	1.00
1203168--1203212	2	22.5	2	95	0	81	51	0	0	48	1.00
1204057--1204105	21	2.3	21	85	0	62	18	26	10	44	1.81
1209609--1209636	14	2.0	14	100	0	56	14	7	28	50	1.69
1211235--1211930	356	2.0	356	99	0	1374	35	16	16	31	1.91
1212513--1212545	16	2.0	17	88	5	50	51	9	15	24	1.72
1213407--1213756	174	2.0	174	88	2	524	39	17	11	31	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1225918--1225968	3	16.0	3	77	18	50	29	31	3	35	1.76
1226687--1226726	20	2.0	20	85	5	53	65	2	25	7	1.32
1236416--1236464	2	24.5	2	100	0	98	51	0	48	0	1.00
1236687--1236743	20	2.9	19	80	12	53	35	0	3	61	1.13
1237058--1237089	2	16.5	2	93	6	57	50	0	0	50	1.00
1237184--1237217	2	17.0	2	100	0	68	50	0	0	50	1.00
1237845--1237878	6	5.7	6	92	0	59	17	0	0	82	0.67
1237846--1237883	12	3.2	12	92	0	58	21	2	0	76	0.91
1241953--1241988	2	18.0	2	100	0	72	50	0	0	50	1.00
1242205--1242241	2	18.5	2	94	0	65	0	2	48	48	1.15
1242383--1242418	18	2.0	18	100	0	72	33	5	0	61	1.19
1246117--1246157	21	1.9	22	85	14	59	58	0	0	41	0.98
1246141--1246188	24	2.0	24	84	8	62	56	4	0	39	1.19
1247591--1247624	17	2.0	17	94	0	59	55	0	0	44	0.99
1250787--1250850	24	2.7	23	81	15	69	42	4	3	50	1.39
1251109--1251151	3	14.3	3	85	9	61	37	0	0	62	0.95
1251496--1251520	13	1.9	13	100	0	50	52	0	0	48	1.00
1251499--1251569	30	2.3	31	83	11	83	45	0	0	54	0.99
1262572--1262606	2	17.5	2	93	0	61	2	0	45	51	1.16
1263450--1263483	13	2.5	13	90	4	50	32	5	44	17	1.73
1263562--1263625	27	2.4	27	83	0	83	46	20	4	28	1.70
1265531--1265576	21	2.1	22	88	4	67	19	28	19	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1268151--1268216	27	2.4	27	87	0	87	53	10	4	31	1.56
1273160--1273196	13	2.6	14	91	8	58	35	0	0	64	0.94
1273201--1273230	3	10.0	3	100	0	60	33	0	0	66	0.92
1277812--1277844	3	11.0	3	100	0	66	66	0	0	33	0.92
1277965--1278010	24	1.9	24	100	0	92	36	8	19	34	1.83
1279337--1279374	18	2.1	19	85	5	51	60	2	0	36	1.11
1279786--1279811	2	13.0	2	100	0	52	50	0	0	50	1.00
1281507--1281540	10	3.4	10	91	0	50	50	8	0	41	1.34
1286774--1286813	19	2.1	19	95	0	71	52	10	7	30	1.62
1288224--1288260	2	18.5	2	100	0	74	48	0	51	0	1.00

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15