genome.fa.s221.2.7.7.80.10.50.1000.10.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: Scaffold221
Parameters: 2 7 7 80 10 50 1000
Length:  2539808

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

This is table  10  of  19  ( 2279 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)
1168870--1168899	13	2.3	13	94	0	51	36	3	6	53	1.44
1169669--1169736	27	2.6	26	80	15	77	55	0	2	41	1.15
1169700--1169758	19	3.1	19	80	14	59	59	1	1	37	1.18
1169696--1169745	26	2.0	25	81	14	59	62	0	2	36	1.07
1169987--1170016	15	2.0	15	93	0	51	63	0	0	36	0.95
1176719--1176755	2	18.5	2	88	0	56	48	2	2	45	1.30
1176976--1177026	11	4.1	12	75	14	50	43	0	0	56	0.99
1177384--1177417	17	2.0	17	88	11	52	58	0	5	35	1.22
1177931--1177968	17	2.2	19	86	13	55	34	5	2	57	1.35
1178789--1178858	31	2.2	33	82	12	83	47	2	0	50	1.16
1178852--1178896	20	2.4	20	85	10	60	31	4	0	64	1.13
1179368--1179430	26	2.5	25	82	5	74	52	0	0	47	1.00
1179370--1179419	20	2.5	20	84	9	59	52	0	0	48	1.00
1181404--1181445	3	14.0	3	100	0	84	33	33	0	33	1.58
1183939--1183975	2	18.5	2	100	0	74	51	0	0	48	1.00
1187797--1187829	9	3.7	9	88	11	50	72	0	0	27	0.85
1187931--1187967	18	2.0	20	89	10	60	27	5	10	56	1.55
1187966--1188011	14	3.1	15	76	11	51	47	0	0	52	1.00
1188547--1188588	20	2.2	19	87	12	59	35	2	2	59	1.23
1188649--1188728	20	4.1	20	76	16	71	53	0	0	46	1.00
1188957--1189001	20	2.2	21	92	7	76	48	0	0	51	1.00
1189038--1189063	6	4.3	6	100	0	52	53	0	0	46	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1189720--1189888	27	6.2	27	71	17	102	37	0	0	61	1.01
1189731--1189833	18	5.1	19	69	20	66	36	0	0	62	1.02
1189744--1189911	5	34.2	5	65	20	79	38	1	0	59	1.10
1189719--1189829	44	2.4	49	78	15	130	37	0	0	61	1.02
1189797--1189888	14	6.4	14	70	24	50	40	0	0	59	0.97
1189789--1189888	32	3.4	29	78	12	91	39	0	0	61	0.96
1189736--1189893	11	14.5	11	67	21	75	37	0	0	61	1.06
1191386--1191427	17	2.8	14	80	19	57	57	0	0	42	0.99
1191391--1191487	17	5.7	17	76	16	69	59	2	0	38	1.09
1191408--1191498	39	2.2	41	81	12	100	59	2	0	38	1.10
1191873--1191912	20	2.0	20	85	0	53	47	0	2	50	1.14
1192496--1192591	49	2.0	49	80	12	108	47	2	0	50	1.12
1192922--1192962	20	2.2	18	86	8	55	46	7	0	46	1.30
1192942--1192971	13	2.3	13	100	0	60	46	6	0	46	1.29
1192992--1193075	32	2.8	32	78	12	88	45	1	0	53	1.08
1198170--1198207	20	1.9	20	88	0	58	65	0	0	34	0.93
1198198--1198242	17	2.6	17	86	10	56	53	0	0	46	1.00
1198183--1198262	32	2.5	32	80	8	92	57	0	0	42	0.98
1198924--1198976	25	2.1	25	82	6	63	26	7	7	58	1.52
1200032--1200122	15	5.9	15	69	18	71	60	2	2	35	1.21
1200067--1200122	29	1.9	29	85	7	78	62	0	1	35	1.06
1200033--1200122	8	10.6	8	71	19	51	60	2	2	35	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1200438--1200532	16	5.6	18	70	23	57	44	0	0	55	0.99
1200435--1200512	27	3.0	27	82	14	92	46	0	0	53	1.00
1200412--1200509	14	6.7	14	70	21	60	48	0	1	50	1.07
1200463--1200513	15	3.2	15	76	18	50	45	0	0	54	0.99
1200452--1200530	27	3.0	26	82	16	76	43	0	0	56	0.99
1200433--1200526	33	2.7	35	81	18	117	45	0	0	54	0.99
1201629--1201678	16	2.9	17	79	11	57	48	0	0	52	1.00
1201628--1201678	17	2.9	17	77	8	57	49	0	0	50	1.00
1202157--1202214	15	3.7	15	76	14	64	44	1	0	53	1.10
1202133--1202215	33	2.4	34	82	15	100	43	1	1	54	1.16
1202161--1202229	33	2.1	33	89	5	104	43	2	0	53	1.15
1202218--1202315	6	17.3	6	70	21	61	31	0	1	67	0.98
1202239--1202278	19	2.0	20	85	4	55	37	0	0	62	0.95
1202266--1202303	11	3.2	12	85	11	51	26	0	0	73	0.83
1202265--1202322	17	3.4	17	78	2	62	34	0	0	65	0.93
1202503--1202567	21	3.0	21	78	17	62	41	0	0	58	0.98
1202586--1202635	21	2.4	22	76	10	59	38	0	2	60	1.09
1202547--1202647	45	2.2	46	78	16	113	34	0	0	63	1.08
1202570--1202650	20	4.0	19	73	16	65	38	0	1	60	1.05
1202665--1202716	27	2.0	26	81	11	61	48	0	3	48	1.20
1204495--1204520	2	13.0	2	100	0	52	50	0	0	50	1.00
1209451--1209486	2	18.0	2	94	0	63	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1211775--1211799	12	2.1	12	100	0	50	56	24	8	12	1.62
1211736--1211837	50	2.0	51	82	1	125	39	18	23	18	1.92
1214001--1214034	2	17.0	2	87	0	50	0	2	44	52	1.16
1216901--1216958	6	9.8	6	77	20	52	48	1	0	50	1.11
1217049--1217106	24	2.5	24	81	10	66	48	0	0	51	1.00
1217058--1217107	26	1.9	26	88	8	75	46	0	0	54	1.00
1217062--1217118	26	2.3	24	79	8	69	49	0	0	50	1.00
1219623--1219651	2	14.5	2	100	0	58	51	0	0	48	1.00
1219815--1219909	22	4.5	22	71	16	67	44	0	0	55	0.99
1219852--1219907	19	2.9	18	84	10	67	41	0	0	58	0.98
1219894--1219935	21	2.0	21	90	0	66	57	0	0	42	0.99
1227597--1227676	30	2.7	30	84	7	117	28	15	22	33	1.94
1227863--1227927	33	2.0	33	87	3	96	20	15	10	53	1.71
1232049--1232140	30	3.1	30	88	3	132	30	13	23	32	1.93
1239991--1240083	46	2.0	46	97	0	177	44	17	4	34	1.68
1240535--1240579	17	2.6	17	78	3	54	35	13	20	31	1.91
1241398--1241517	63	1.9	64	89	1	188	34	17	20	28	1.95
1244471--1244525	17	3.3	17	76	2	58	52	1	1	43	1.22
1244505--1244565	26	2.3	27	80	5	70	54	0	0	45	1.00
1244815--1244872	30	2.0	30	80	12	68	50	3	0	46	1.18
1244845--1244893	17	2.9	17	75	9	55	48	2	0	48	1.12
1244899--1244954	27	2.1	27	83	6	69	55	0	0	44	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1245553--1245578	9	2.9	9	100	0	52	19	46	11	23	1.82
1246688--1246888	99	2.0	100	95	2	359	27	8	23	40	1.83
1264442--1264531	16	5.6	16	68	12	58	34	1	1	63	1.09
1265960--1266022	26	2.4	28	84	12	89	38	0	0	61	0.96
1275673--1275741	22	3.2	21	76	13	68	66	1	0	31	1.00
1275677--1275747	28	2.5	27	77	11	70	67	1	0	30	0.99
1276535--1276628	19	5.1	19	70	24	67	40	1	0	58	1.05
1276621--1276662	22	1.9	22	90	0	66	50	2	0	47	1.14
1276814--1276857	13	3.6	13	79	14	58	40	0	2	56	1.11
1276820--1276897	23	3.4	23	75	12	63	51	0	1	47	1.09
1276851--1276914	17	3.5	17	79	14	56	62	0	0	37	0.95
1276902--1276944	19	2.1	21	83	8	54	48	0	0	51	1.00
1276912--1276957	24	2.0	23	86	4	65	52	0	0	47	1.00
1276981--1277049	20	3.2	22	82	13	83	60	0	0	39	0.97
1277001--1277053	16	3.2	16	86	10	63	62	0	0	37	0.96
1276981--1277049	11	6.5	11	70	18	56	60	0	0	39	0.97
1276984--1277053	12	5.4	12	70	21	52	60	0	0	40	0.97
1277500--1277558	31	1.9	31	86	6	84	59	0	0	40	0.97
1281518--1281670	81	1.9	78	80	6	173	43	20	11	23	1.85
1281875--1281943	2	34.5	2	100	0	138	50	0	0	49	1.00
1282407--1282445	19	2.1	19	85	9	53	46	0	0	53	1.00
1283155--1283224	23	3.0	24	72	19	67	57	0	0	42	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1287472--1287516	22	2.0	22	86	0	63	48	11	8	31	1.69
1287621--1287650	2	15.0	2	100	0	60	50	0	0	50	1.00
1287930--1287986	20	2.7	20	84	15	71	42	1	1	54	1.21
1288901--1288933	15	2.3	15	89	5	50	9	21	0	69	1.15
1292074--1292195	48	2.6	48	90	1	192	26	2	18	52	1.58
1292754--1292805	25	2.1	24	89	3	77	48	5	0	46	1.26
1292905--1292944	3	13.3	3	100	0	80	67	0	0	32	0.91
1294183--1294232	17	3.1	16	75	13	50	52	2	0	46	1.12
1294837--1294874	10	3.8	10	86	10	51	50	0	0	50	1.00
1295109--1295147	3	13.0	3	88	0	60	0	28	2	69	1.02

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