genome.fa.s400.2.7.7.80.10.50.1000.8.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: Scaffold400
Parameters: 2 7 7 80 10 50 1000
Length:  2847997

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   

This is table  8  of  17  ( 1977 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)
1088397--1088430	10	3.4	10	100	0	68	41	41	8	8	1.67
1090306--1090368	32	1.9	34	90	6	103	33	22	11	33	1.89
1093033--1093082	19	2.6	19	78	12	57	58	2	0	40	1.10
1101879--1101935	26	2.2	25	90	3	87	36	12	12	38	1.80
1108378--1108430	28	2.0	28	85	7	74	49	0	1	49	1.12
1111213--1111261	24	2.0	24	92	0	80	30	10	8	51	1.65
1122976--1123017	15	2.9	14	83	16	50	33	0	2	64	1.07
1123223--1123261	18	2.1	19	90	4	62	30	2	0	66	1.05
1124168--1124204	17	2.1	18	95	5	67	27	0	10	62	1.28
1127255--1127313	17	3.5	17	75	9	50	50	0	0	49	1.00
1127568--1127623	26	2.2	26	86	0	76	48	0	1	50	1.11
1127678--1127709	16	2.0	16	93	0	55	43	0	3	53	1.16
1127968--1128000	17	1.9	17	88	11	50	63	0	3	33	1.10
1128307--1128359	27	2.0	27	85	7	72	45	1	0	52	1.11
1131825--1131939	59	1.9	59	96	0	212	20	15	13	50	1.77
1133042--1133098	24	2.4	24	79	5	62	29	21	5	43	1.74
1135469--1135527	2	29.5	2	96	0	109	50	1	0	47	1.11
1135658--1135688	15	2.1	15	100	0	62	41	45	0	12	1.42
1135728--1135766	2	19.5	2	100	0	78	51	0	0	48	1.00
1138326--1138357	7	4.6	7	100	0	64	12	0	0	87	0.54
1138318--1138357	21	1.9	21	85	10	55	17	0	0	82	0.67
1138998--1139034	2	18.5	2	100	0	74	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1139386--1139423	18	2.0	19	85	10	51	60	0	0	39	0.97
1140006--1140054	2	25.0	2	95	4	91	48	0	0	51	1.00
1140182--1140213	3	10.7	3	93	0	55	65	0	3	31	1.08
1141455--1141510	28	2.0	28	86	6	78	37	1	0	60	1.07
1142438--1142476	18	2.1	18	85	4	51	48	5	0	46	1.24
1146743--1146771	12	2.3	13	94	5	51	68	3	0	27	1.05
1146774--1147042	35	7.8	35	97	1	481	42	5	31	19	1.75
1146927--1146984	14	3.7	14	72	24	53	37	6	36	18	1.78
1148239--1148666	79	5.4	79	91	0	678	28	26	14	30	1.95
1148600--1148710	52	2.2	52	85	4	154	27	23	12	36	1.91
1148600--1148744	52	2.8	51	76	11	143	26	22	11	38	1.89
1154986--1155373	55	6.9	54	81	8	427	28	27	20	24	1.99
1154918--1155638	171	4.3	168	80	11	824	26	27	19	25	1.99
1154886--1155373	116	4.2	114	81	11	523	27	27	19	25	1.99
1155396--1155640	55	4.4	55	87	10	361	26	28	21	22	1.99
1155180--1156211	209	4.9	206	73	15	737	25	27	20	26	1.99
1155415--1155650	115	2.0	115	92	5	397	25	29	19	25	1.99
1155153--1155847	264	2.6	266	90	4	1041	26	27	19	26	1.99
1155660--1155848	55	3.3	55	83	7	229	28	26	21	23	1.99
1155718--1156152	154	2.9	154	83	7	575	25	27	20	25	1.99
1155153--1155998	264	3.2	256	85	8	799	26	27	19	26	1.99
1155873--1155998	55	2.3	55	90	2	200	29	27	22	20	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1156037--1156211	61	2.9	60	81	10	205	25	25	21	28	1.99
1154918--1156213	473	2.7	481	80	13	1484	25	27	20	26	1.99
1156187--1156303	47	2.5	47	94	2	202	22	29	11	36	1.90
1159603--1159902	52	5.7	51	66	12	171	29	26	11	32	1.92
1159769--1159936	52	3.3	52	80	8	184	30	27	10	31	1.90
1159604--1160046	210	2.1	210	91	2	719	28	27	12	31	1.93
1159660--1160063	108	3.8	108	71	14	318	28	27	13	30	1.94
1159947--1160130	79	2.3	79	83	3	210	25	27	15	32	1.95
1161146--1161294	21	8.1	21	65	28	99	47	4	28	18	1.69
1161159--1161334	35	5.1	35	96	0	327	43	5	32	18	1.72
1161162--1161354	35	5.9	29	84	12	145	45	4	30	19	1.70
1162551--1162620	27	2.6	27	86	2	86	25	32	20	21	1.97
1162575--1163383	79	10.3	79	93	0	1334	26	25	14	32	1.95
1163315--1163429	52	2.2	52	84	4	144	26	22	14	36	1.93
1167843--1167874	16	2.0	16	100	0	64	37	12	6	43	1.68
1167901--1167962	32	1.9	32	83	0	79	38	16	8	37	1.78
1168376--1168423	23	2.1	23	84	7	62	45	2	10	41	1.50
1169230--1169280	16	3.0	16	81	16	50	49	1	9	39	1.47
1169666--1169700	2	17.5	2	100	0	70	48	0	0	51	1.00
1173612--1173659	9	5.3	9	84	0	51	31	27	0	41	1.56
1175809--1175848	20	2.0	20	85	4	55	42	5	15	37	1.68
1176214--1176354	70	2.0	70	100	0	282	33	12	22	31	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1181491--1181522	16	2.0	16	93	0	55	34	6	12	46	1.67
1182259--1182285	12	2.2	12	100	0	54	55	11	7	25	1.61
1184779--1184837	28	2.1	28	84	9	77	50	5	3	40	1.41
1185020--1185045	4	6.5	4	100	0	52	73	0	0	26	0.84
1185899--1185958	14	4.1	14	76	6	57	33	0	3	63	1.11
1185787--1186164	190	2.0	186	96	2	695	40	2	7	48	1.46
1186089--1186148	14	4.1	14	72	14	50	33	0	5	61	1.17
1186223--1186255	4	8.2	4	93	0	57	69	0	3	27	1.03
1186506--1186548	16	2.7	15	76	13	50	67	0	0	32	0.91
1187306--1187339	2	17.0	2	100	0	68	50	0	0	50	1.00
1192908--1192951	2	22.0	2	100	0	88	50	0	0	50	1.00
1193102--1193187	29	2.9	29	82	5	102	55	1	6	36	1.34
1193336--1193380	21	2.1	22	92	8	76	48	4	8	37	1.55
1193477--1193501	13	1.9	13	100	0	50	32	16	16	36	1.90
1193457--1193519	32	1.9	33	90	3	101	28	15	17	38	1.91
1194417--1194702	139	2.1	135	81	7	335	40	16	13	29	1.88
1198601--1198645	13	4.0	12	75	24	53	31	15	15	37	1.89
1215194--1215286	8	11.6	8	71	16	68	81	13	3	1	0.86
1215192--1215250	14	3.6	16	79	18	59	84	11	3	0	0.73
1215191--1215286	11	7.8	11	70	23	59	81	14	3	1	0.87
1215191--1215286	39	2.6	38	80	14	110	81	14	3	1	0.87
1216536--1217047	28	17.9	28	83	3	549	29	29	17	23	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1216536--1217032	141	3.5	140	82	4	552	29	29	17	22	1.97
1216987--1217054	32	2.1	33	88	2	102	26	27	16	29	1.97
1217962--1218214	20	11.7	20	68	19	143	30	16	13	40	1.86
1218053--1218123	37	1.9	37	94	0	124	30	15	14	39	1.87
1217951--1218214	88	2.9	90	93	3	451	29	16	12	40	1.86
1221140--1221637	250	2.0	248	80	6	560	27	22	20	29	1.98
1225507--1225550	8	5.5	8	78	10	54	84	13	0	2	0.73
1225505--1225575	16	4.4	15	74	11	61	81	12	1	4	0.90
1225506--1225567	16	3.8	16	81	10	72	80	14	1	3	0.91
1225508--1225574	7	8.9	7	76	15	62	80	13	1	4	0.93
1226859--1226964	54	2.0	54	84	3	142	22	32	13	32	1.92
1226859--1226949	27	3.4	27	92	3	139	24	35	13	27	1.92
1226979--1228125	34	35.7	32	73	13	339	22	30	10	36	1.88
1227070--1227129	27	2.2	27	85	5	77	21	28	11	38	1.89
1226979--1227510	128	4.1	130	76	11	376	21	29	10	38	1.88
1227197--1227263	32	2.3	29	80	12	75	22	31	8	37	1.85
1226953--1227775	228	3.6	227	78	8	713	22	29	10	37	1.88
1227298--1227389	27	3.2	27	78	15	96	20	28	13	38	1.90
1227140--1227418	94	2.9	95	75	11	255	21	29	11	37	1.89
1227528--1227613	27	3.2	27	86	6	129	24	23	11	40	1.87
1227584--1227702	61	2.0	61	88	6	179	26	32	10	30	1.89
1227818--1227871	27	2.0	27	82	7	65	29	29	9	31	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1227753--1227982	130	1.8	124	82	5	289	23	33	9	33	1.87
1227962--1228124	65	2.5	66	83	5	215	20	31	9	38	1.86
1228164--1228251	33	2.7	33	78	1	97	27	34	14	23	1.94
1228302--1228580	43	6.1	43	73	15	218	25	23	17	33	1.96
1228343--1228971	52	12.6	51	72	13	346	26	25	15	32	1.95
1228309--1228934	95	6.4	95	76	8	499	26	24	15	33	1.95
1228343--1228975	147	4.3	148	72	10	486	26	25	15	32	1.95
1228732--1228975	102	2.4	103	81	4	260	26	25	13	34	1.93
1228835--1229073	52	4.6	51	77	8	198	25	25	15	33	1.95
1238434--1238474	18	2.3	18	86	0	55	0	21	2	75	0.92

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17