genome.fa.s129.2.7.7.80.10.50.1000.8.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: Scaffold129
Parameters: 2 7 7 80 10 50 1000
Length:  3652842

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   

This is table  8  of  23  ( 2702 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)
1100920--1101287	163	2.3	162	81	8	424	34	11	10	42	1.76
1101249--1101327	40	2.0	39	92	2	131	24	10	10	55	1.63
1105369--1105557	50	3.8	50	74	9	156	38	16	16	28	1.91
1107769--1107824	21	2.6	22	75	13	55	37	10	12	39	1.78
1110466--1110526	14	4.7	13	76	11	54	75	1	21	1	0.98
1110456--1110526	25	2.8	25	79	10	65	73	1	22	2	1.05
1110508--1110534	11	2.5	11	100	0	54	81	0	11	7	0.87
1115301--1115386	13	7.5	13	67	28	70	34	17	13	33	1.89
1115304--1115401	33	3.0	33	95	3	171	33	18	14	33	1.91
1115337--1115402	20	3.7	20	73	26	83	34	18	15	31	1.92
1115431--1115486	19	2.9	19	86	2	76	35	16	16	32	1.90
1115471--1115497	13	2.1	13	100	0	54	40	14	14	29	1.86
1117845--1117884	21	2.0	21	90	5	64	47	0	20	32	1.50
1118012--1118038	13	2.1	13	100	0	54	40	14	14	29	1.86
1121418--1121443	13	2.0	13	100	0	52	30	15	15	38	1.88
1121398--1121459	33	1.9	32	90	9	99	29	14	16	40	1.88
1126116--1126146	15	2.1	15	93	0	53	12	22	16	48	1.80
1130166--1130191	13	2.0	13	100	0	52	30	15	15	38	1.88
1130146--1130209	32	2.0	33	87	9	96	31	15	14	39	1.87
1131314--1131338	13	1.9	13	100	0	50	8	16	8	68	1.38
1140318--1140381	33	1.9	33	87	6	94	39	15	17	28	1.90
1141229--1141322	19	4.9	19	93	1	152	39	17	14	28	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1141307--1141333	13	2.1	13	100	0	54	40	14	14	29	1.86
1142272--1142323	21	2.4	22	84	9	63	34	7	15	42	1.75
1142433--1142497	33	2.0	32	87	3	94	29	18	15	36	1.91
1142463--1142519	19	2.9	19	89	5	87	35	15	14	35	1.88
1142459--1142519	20	3.1	19	86	6	86	36	14	14	34	1.87
1150989--1151028	13	3.1	13	85	7	55	30	12	15	42	1.83
1151008--1151069	20	3.2	19	78	15	56	35	17	14	32	1.90
1151118--1151142	13	1.9	13	100	0	50	36	16	16	32	1.90
1153668--1153732	33	2.0	32	85	11	87	33	16	18	30	1.94
1154480--1154546	33	2.0	33	85	5	91	26	31	14	26	1.95
1154826--1154929	53	2.0	53	96	0	190	40	5	15	38	1.71
1154829--1154972	53	2.8	53	84	4	168	40	5	18	35	1.74
1154924--1154969	22	2.1	22	88	11	69	34	4	23	36	1.75
1158712--1158738	12	2.2	12	100	0	54	33	14	18	33	1.92
1159149--1159213	32	2.0	32	87	3	94	30	16	10	41	1.83
1159264--1159328	33	2.0	32	88	11	96	33	13	18	33	1.90
1159284--1159308	13	1.9	13	100	0	50	36	16	16	32	1.90
1160558--1160604	26	1.9	23	87	12	67	38	6	12	42	1.69
1160557--1160615	24	2.4	25	80	11	68	32	6	18	42	1.77
1168077--1168119	3	14.7	3	87	4	61	69	2	25	2	1.12
1168064--1168116	26	2.0	26	85	0	70	75	1	18	3	1.05
1168075--1168107	17	1.9	17	93	0	57	72	3	21	3	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1168072--1168110	20	2.0	20	89	0	60	74	2	20	2	1.06
1168723--1168755	16	2.0	16	94	5	57	36	0	0	63	0.95
1168731--1168778	24	2.0	24	91	0	78	37	0	0	62	0.95
1170458--1170488	13	2.4	13	88	0	53	35	12	16	35	1.87
1170532--1170605	20	3.8	19	87	5	94	39	17	12	31	1.86
1173085--1173111	13	2.1	13	100	0	54	40	7	14	37	1.74
1179290--1179342	20	2.7	20	93	0	88	35	20	13	30	1.91
1179366--1179423	19	3.1	18	85	11	80	32	15	15	36	1.89
1179407--1179433	13	2.1	13	100	0	54	40	14	14	29	1.86
1179638--1179670	10	3.2	11	87	12	52	15	0	27	57	1.38
1190768--1190793	2	13.0	2	100	0	52	50	0	50	0	1.00
1191065--1191097	15	2.2	15	89	10	50	33	3	0	63	1.10
1192985--1193010	2	13.0	2	100	0	52	0	0	50	50	1.00
1193241--1193282	2	21.5	2	90	4	68	0	45	0	54	0.99
1198445--1198481	19	2.0	19	89	5	58	29	2	0	67	1.04
1198558--1198592	16	2.2	16	89	0	52	65	0	0	34	0.93
1198562--1198667	53	2.0	54	80	12	121	53	0	0	45	1.06
1198727--1198764	2	19.0	2	94	0	67	47	0	0	52	1.00
1207643--1207693	2	25.5	2	100	0	102	49	0	0	50	1.00
1210934--1211026	9	10.4	9	77	11	77	73	0	1	25	0.90
1210934--1211028	35	2.6	37	85	9	117	73	0	1	25	0.90
1210927--1211026	8	12.5	8	76	14	75	72	0	1	27	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1210982--1211057	25	3.0	25	81	9	66	67	2	1	28	1.12
1211724--1211749	13	2.0	13	100	0	52	38	15	15	30	1.88
1213336--1213368	9	3.7	9	95	0	57	45	3	33	18	1.65
1213972--1214016	21	2.1	21	84	8	56	53	4	20	22	1.63
1217857--1217936	20	3.8	20	75	15	79	27	15	13	43	1.84
1217922--1217960	13	3.0	13	92	0	60	33	17	15	33	1.92
1220411--1220484	20	3.7	20	81	3	103	35	13	20	31	1.91
1220429--1220504	21	3.7	21	82	3	109	40	11	18	28	1.86
1220411--1220504	41	2.3	41	100	0	188	38	12	19	29	1.89
1223063--1223104	20	2.1	20	100	0	84	21	19	9	50	1.75
1226394--1226458	16	4.1	16	75	0	58	44	15	12	27	1.82
1226391--1226462	32	2.2	33	87	5	110	43	15	12	29	1.83
1227214--1227239	13	2.0	13	100	0	52	30	15	15	38	1.88
1227299--1227351	20	2.6	21	82	8	65	28	16	16	37	1.91
1227339--1227363	13	1.9	13	100	0	50	36	16	16	32	1.90
1229836--1229871	13	2.8	13	95	0	63	36	19	13	30	1.91
1231008--1231048	21	2.0	21	85	9	57	39	12	9	39	1.76
1231088--1231158	20	3.6	19	75	7	61	39	15	12	32	1.85
1231128--1231264	53	2.6	53	96	1	247	37	18	17	27	1.93
1231288--1231318	10	3.1	10	90	0	53	22	29	6	41	1.78
1231439--1231464	13	2.0	13	100	0	52	30	15	23	30	1.95
1234784--1234836	20	2.7	20	90	0	79	32	11	18	37	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1234805--1234868	33	2.0	32	87	3	92	29	12	20	37	1.89
1234910--1234962	20	2.6	21	78	3	63	28	15	15	41	1.87
1234950--1234974	13	1.9	13	100	0	50	36	16	16	32	1.90
1235532--1235600	22	3.1	22	95	2	120	34	26	0	39	1.57
1236916--1236963	21	2.3	21	92	0	78	29	8	25	37	1.85
1237299--1237339	22	2.0	21	86	13	59	41	4	21	31	1.74
1243662--1243687	13	2.0	13	100	0	52	30	15	15	38	1.88
1243747--1243799	20	2.6	21	82	8	65	28	16	16	37	1.91
1244762--1244787	13	2.0	13	100	0	52	38	15	15	30	1.88
1244744--1244807	32	2.0	33	87	3	94	42	14	14	29	1.84
1249180--1249231	19	2.7	20	81	6	70	44	15	13	26	1.84
1251183--1251224	21	2.0	21	86	9	59	50	0	0	50	1.00
1253775--1253888	50	2.3	50	86	6	160	26	15	13	44	1.83
1262091--1262163	20	3.6	20	79	3	92	36	13	17	31	1.89
1262109--1262184	21	3.7	21	78	3	91	40	11	17	30	1.85
1262091--1262184	41	2.3	41	94	0	161	39	12	17	30	1.87
1262223--1262248	13	2.0	13	100	0	52	38	15	15	30	1.88
1266451--1266506	20	2.7	21	86	5	78	28	14	14	42	1.84
1267460--1267500	21	2.0	21	85	9	57	39	12	9	39	1.76
1267540--1267610	20	3.5	20	75	11	74	43	15	12	28	1.83
1267580--1267716	53	2.6	53	92	1	229	38	18	16	27	1.91
1267740--1267770	10	3.1	10	90	0	53	22	29	6	41	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1267758--1267813	21	2.6	22	94	5	105	26	25	10	37	1.88
1267896--1267921	13	2.0	13	100	0	52	30	15	23	30	1.95
1273143--1273183	21	2.0	21	85	9	57	39	12	9	39	1.76
1273223--1273293	20	3.5	20	75	11	74	43	15	12	28	1.83
1273263--1273399	53	2.6	53	92	1	229	38	18	16	27	1.91
1273423--1273453	10	3.1	10	90	0	53	22	29	6	41	1.78
1273441--1273496	21	2.6	22	94	5	105	26	25	10	37	1.88
1273579--1273604	13	2.0	13	100	0	52	30	15	23	30	1.95
1276226--1276300	19	3.9	19	87	1	114	37	13	18	30	1.89
1280312--1280338	13	2.1	13	100	0	54	40	14	14	29	1.86

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23