genome.fa.s414.2.7.7.80.10.50.1000.8.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: Scaffold414
Parameters: 2 7 7 80 10 50 1000
Length:  2018024

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

This is table  8  of  13  ( 1553 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)
1119015--1119056	21	2.0	21	85	4	57	23	19	9	47	1.78
1119176--1119205	2	15.0	2	100	0	60	50	0	50	0	1.00
1123755--1123798	3	14.7	3	92	0	52	4	4	34	56	1.40
1124016--1124053	3	12.7	3	94	0	67	0	31	2	65	1.06
1124908--1124941	2	17.0	2	100	0	68	50	0	50	0	1.00
1125777--1125821	17	2.6	17	78	3	54	62	6	4	26	1.39
1126361--1126401	12	3.4	12	89	0	55	43	0	2	53	1.13
1126347--1126388	21	2.1	19	91	8	66	40	0	2	57	1.12
1126356--1126496	21	6.8	21	69	21	66	40	4	3	51	1.38
1126357--1126433	12	7.0	11	70	18	54	40	1	3	54	1.27
1126482--1126600	10	11.7	10	65	22	52	39	4	3	52	1.37
1126543--1126791	21	11.8	21	70	14	93	37	5	6	50	1.51
1126548--1126792	42	5.8	41	67	17	126	37	5	5	50	1.50
1130573--1130625	20	2.9	19	89	10	76	32	16	11	39	1.85
1134668--1134693	13	2.0	13	100	0	52	30	15	15	38	1.88
1134732--1134807	21	3.7	21	80	3	100	28	17	11	42	1.84
1134753--1134825	20	3.6	20	81	3	101	31	19	13	35	1.91
1134732--1134825	41	2.3	41	98	0	179	29	18	12	39	1.88
1135429--1135502	21	3.4	21	75	14	87	25	33	4	36	1.75
1135426--1135513	44	2.0	44	100	0	176	27	29	4	38	1.76
1135429--1135514	21	4.0	21	74	14	77	29	30	4	36	1.78
1135439--1135532	44	2.1	44	84	3	118	32	23	3	40	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1137321--1137359	13	3.0	13	96	0	69	35	15	17	30	1.91
1137345--1137423	20	3.7	20	75	18	70	45	15	13	25	1.83
1139431--1139468	15	2.5	15	91	0	58	13	21	15	50	1.78
1143532--1143557	13	2.0	13	100	0	52	30	15	15	38	1.88
1143596--1143671	21	3.7	21	80	3	100	28	17	11	42	1.84
1143617--1143689	20	3.6	20	81	3	101	31	19	13	35	1.91
1143596--1143689	41	2.3	41	98	0	179	29	18	12	39	1.88
1150032--1150145	19	6.7	18	74	24	113	34	20	11	34	1.88
1150053--1150165	32	3.5	32	97	0	199	35	21	9	33	1.86
1150070--1150158	13	5.9	13	69	27	52	34	19	11	34	1.87
1158293--1158322	8	3.8	8	95	0	51	90	3	0	6	0.56
1159537--1159811	28	9.9	28	80	7	310	28	28	19	23	1.98
1159542--1159777	111	2.1	111	89	3	366	29	28	19	22	1.98
1159542--1159811	56	4.8	56	89	2	366	29	28	19	22	1.98
1160008--1160091	44	1.9	44	92	0	141	21	25	14	39	1.91
1160012--1160115	44	2.4	44	81	3	111	25	26	12	34	1.92
1174148--1174533	56	6.9	56	88	0	529	28	28	18	25	1.98
1174157--1174537	28	13.6	28	79	5	394	28	28	18	24	1.98
1174750--1174848	44	2.3	43	85	7	128	23	21	15	40	1.90
1190308--1190698	28	14.0	27	86	6	478	27	30	18	23	1.98
1190317--1190698	84	4.6	84	86	5	540	27	30	19	23	1.98
1190308--1190698	56	7.0	56	91	1	606	27	30	18	23	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1191663--1191734	20	3.6	20	81	7	92	31	12	12	43	1.80
1199004--1199051	12	4.0	12	77	0	51	35	0	31	33	1.58
1199457--1199510	20	2.7	20	85	2	72	35	5	24	35	1.79
1202301--1202404	52	2.0	52	83	3	129	29	33	12	24	1.92
1208655--1208719	33	2.0	33	88	11	98	30	18	12	38	1.88
1208675--1208701	13	2.1	13	100	0	54	29	14	14	40	1.86
1208748--1208804	19	2.8	21	82	17	84	31	17	14	36	1.89
1208790--1208816	13	2.1	13	100	0	54	40	14	14	29	1.86
1209352--1209406	19	3.1	18	85	14	71	29	34	0	36	1.58
1209370--1209410	19	2.2	19	100	0	82	29	36	0	34	1.58
1211289--1211330	13	3.2	13	93	0	75	40	14	14	30	1.85
1217418--1217470	20	2.7	20	88	11	74	30	18	13	37	1.89
1217520--1217546	13	2.1	13	100	0	54	40	14	14	29	1.86
1221709--1221780	34	2.1	35	84	2	92	54	11	16	18	1.71
1222094--1222144	19	2.6	20	87	3	68	37	15	15	31	1.89
1228253--1228320	33	2.0	34	82	2	84	38	20	14	26	1.91
1232170--1232380	104	2.0	104	99	0	413	25	15	9	50	1.73
1235541--1235647	54	2.0	54	86	0	151	15	42	7	33	1.75
1236477--1236530	25	2.0	25	82	10	63	46	1	1	50	1.23
1242684--1242722	21	1.9	21	89	5	62	20	0	5	74	1.01
1242972--1243006	2	17.5	2	87	0	52	48	0	2	48	1.16
1249088--1249174	12	7.6	12	66	19	51	44	3	0	51	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1249873--1249905	17	1.9	18	88	11	52	54	0	6	39	1.25
1251278--1251559	150	1.9	149	82	2	359	37	16	16	29	1.91
1252623--1252865	122	2.0	123	86	2	337	18	18	34	28	1.95
1252871--1252985	35	3.3	36	78	8	112	7	31	10	50	1.65
1253466--1253537	18	3.8	19	79	18	71	15	5	0	79	0.91
1253480--1253537	5	11.2	5	82	14	64	15	3	0	81	0.83
1253466--1253536	20	3.5	20	81	11	74	15	5	0	78	0.92
1253467--1253535	27	2.5	28	90	6	106	13	5	0	81	0.87
1254014--1254532	43	12.1	43	85	3	656	37	17	29	15	1.91
1254039--1254532	256	1.9	257	87	2	733	37	17	29	14	1.90
1254756--1254806	21	2.4	22	78	18	54	15	9	9	64	1.48
1261138--1261393	122	2.1	123	88	2	372	15	17	36	30	1.92
1261403--1261517	33	3.4	34	85	4	126	6	28	11	53	1.63
1261981--1262048	13	5.3	13	76	16	79	14	4	0	80	0.85
1261989--1262053	19	3.5	18	78	17	71	15	3	0	81	0.81
1261978--1262055	5	15.4	5	75	21	65	16	3	0	79	0.87
1261980--1262053	27	2.9	27	90	8	118	14	4	0	81	0.84
1267142--1267205	23	2.8	23	90	0	101	12	0	32	54	1.38
1267714--1267784	23	3.1	22	80	11	81	38	0	1	60	1.06
1267721--1267784	22	2.8	24	84	11	89	37	0	1	60	1.06
1267721--1267795	22	3.3	22	77	14	71	41	0	1	57	1.07
1268018--1268061	23	2.0	22	83	12	56	54	0	0	45	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1268558--1268611	26	2.1	26	89	0	81	14	12	29	42	1.83
1269145--1269179	2	17.5	2	100	0	70	51	0	0	48	1.00
1276666--1276726	28	2.1	29	93	3	106	32	21	8	37	1.83
1283467--1283499	18	1.9	17	88	11	50	45	3	3	48	1.33
1287597--1287638	16	2.7	15	82	10	50	73	7	0	19	1.05
1290343--1290371	14	2.1	14	93	6	51	34	0	6	58	1.25
1290935--1291331	206	1.9	209	91	2	649	39	10	18	32	1.84
1291446--1291542	22	4.5	22	77	2	97	51	5	9	34	1.56
1292109--1292144	7	4.9	7	93	6	54	30	0	0	69	0.89
1292108--1292144	15	2.5	15	86	13	58	32	0	0	67	0.91
1292205--1292244	13	3.1	13	81	0	53	52	0	5	42	1.23
1292527--1292568	16	2.6	16	80	0	57	9	14	33	42	1.78
1292556--1292586	16	1.9	16	93	0	53	12	22	29	35	1.91
1292576--1292627	16	3.2	16	78	10	61	13	21	21	44	1.86
1292823--1292862	18	2.2	18	86	8	55	50	2	2	45	1.28
1293539--1293568	16	1.9	15	93	6	51	26	16	3	53	1.59
1294028--1294081	16	3.4	16	86	0	63	3	11	35	50	1.56
1294071--1294128	16	3.6	16	77	15	50	8	15	34	41	1.78
1296287--1296345	31	1.9	31	82	3	75	44	0	3	52	1.17
1301491--1301650	54	3.0	54	94	0	268	11	20	15	52	1.74
1316080--1316115	2	18.0	2	100	0	72	50	0	0	50	1.00
1317367--1317479	37	3.1	37	92	2	174	41	19	4	34	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1317418--1317480	20	3.3	20	66	20	53	42	23	3	30	1.70
1318261--1318657	199	2.0	198	95	1	706	50	9	14	25	1.73
1319246--1319283	10	3.8	10	83	13	51	65	7	5	21	1.38
1319461--1319511	14	3.4	15	78	15	52	78	0	19	1	0.85
1319458--1319513	17	3.3	17	82	5	69	80	0	17	1	0.80
1319457--1319514	11	5.2	11	78	12	55	81	0	17	1	0.78
1319865--1319903	2	19.5	2	89	0	60	43	0	5	51	1.24
1321417--1321441	12	2.1	12	100	0	50	24	16	8	52	1.70
1327570--1327629	16	4.1	14	73	19	52	56	0	0	43	0.99
1327536--1327646	11	10.7	10	69	19	68	58	0	0	39	1.10

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