genome.fa.s168.2.7.7.80.10.50.1000.11.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: Scaffold168
Parameters: 2 7 7 80 10 50 1000
Length:  2098754

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

This is table  11  of  16  ( 1854 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)
1188470--1188499	15	1.9	16	93	6	53	26	0	13	60	1.34
1188564--1188608	18	2.6	17	79	6	54	51	0	0	48	1.00
1189216--1189256	21	2.0	21	85	0	55	48	0	0	51	1.00
1189225--1189260	15	2.3	16	85	4	56	47	0	0	52	1.00
1193261--1193290	2	15.5	2	93	6	53	50	0	0	50	1.00
1193802--1193838	2	18.5	2	100	0	74	48	0	0	51	1.00
1193940--1193982	15	2.9	15	80	13	52	41	2	4	51	1.35
1194940--1194967	2	14.0	2	100	0	56	50	0	0	50	1.00
1195399--1195447	20	2.5	21	84	12	61	57	2	0	40	1.10
1197500--1197556	29	1.9	29	82	10	71	50	0	0	49	1.00
1209038--1209121	28	2.9	28	75	16	82	54	0	0	45	0.99
1210191--1210272	35	2.3	35	85	10	105	54	0	0	45	0.99
1210676--1210742	16	4.2	16	71	17	59	58	0	0	41	0.98
1211830--1211894	23	3.0	21	80	19	64	33	3	0	63	1.10
1211829--1211882	21	2.5	23	80	19	64	35	3	0	61	1.14
1212120--1212144	13	1.9	13	100	0	50	32	0	0	68	0.90
1215758--1216082	150	2.2	150	85	2	438	43	19	14	22	1.87
1216949--1217009	25	2.4	26	80	2	70	44	0	14	40	1.46
1217178--1217204	2	13.5	2	100	0	54	48	0	0	51	1.00
1218605--1218629	5	5.0	5	100	0	50	40	0	40	20	1.52
1226248--1226291	2	22.0	2	100	0	88	0	50	0	50	1.00
1226352--1226452	33	3.1	33	84	8	127	64	2	4	27	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1227136--1227169	2	17.0	2	100	0	68	50	0	0	50	1.00
1227985--1228011	2	13.5	2	100	0	54	51	0	0	48	1.00
1228231--1228298	18	3.9	18	75	18	72	51	1	0	47	1.09
1228227--1228297	32	2.2	33	92	5	117	52	1	0	46	1.09
1229643--1229675	16	1.9	18	88	11	52	27	27	6	39	1.80
1240539--1240602	24	2.7	23	76	19	60	54	1	1	42	1.19
1240938--1241047	47	2.5	42	76	20	111	51	0	1	46	1.11
1240942--1241054	44	2.5	45	79	15	110	52	0	1	46	1.11
1241034--1241082	15	2.9	17	79	14	50	48	0	0	51	1.00
1241912--1241959	17	2.9	17	85	11	64	45	2	2	50	1.25
1242040--1242087	18	2.5	20	83	10	64	58	0	0	41	0.98
1242420--1242464	23	2.0	22	82	4	54	42	2	0	55	1.12
1242400--1242481	26	3.0	26	77	13	74	37	2	0	59	1.11
1242418--1242483	15	4.4	15	75	11	64	40	3	0	56	1.15
1242427--1242489	23	2.7	23	80	9	65	41	3	0	55	1.16
1243885--1243922	20	2.0	20	84	5	51	18	21	2	57	1.52
1244653--1244686	16	2.1	17	94	5	61	41	2	0	55	1.15
1245354--1245393	3	13.3	3	100	0	80	32	0	0	67	0.91
1245678--1245728	19	2.7	19	79	8	68	60	0	1	37	1.08
1245836--1245881	19	2.2	20	85	11	58	41	6	0	52	1.27
1246468--1246498	15	2.0	16	93	6	55	70	0	0	29	0.87
1246880--1246940	27	2.3	27	85	0	77	67	0	1	31	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1247331--1247375	22	2.0	22	91	8	74	37	0	0	62	0.96
1247773--1247805	17	1.9	17	93	0	57	45	3	3	48	1.33
1247866--1247913	20	2.4	21	82	6	55	50	0	0	50	1.00
1248091--1248142	23	2.2	24	80	13	63	48	1	1	48	1.24
1248980--1249026	2	23.5	2	91	0	67	42	0	6	51	1.27
1248988--1249045	24	2.6	24	86	10	79	39	0	8	51	1.33
1249653--1249677	1	25.0	1	100	0	50	0	0	0	100	0.00
1249939--1249983	15	3.0	16	75	12	51	31	0	0	68	0.89
1249939--1249986	16	2.9	15	79	14	51	29	0	0	70	0.87
1250589--1250627	20	2.0	19	85	5	51	66	2	0	30	1.05
1251666--1251751	27	3.1	27	82	12	88	43	0	0	56	0.99
1251671--1251776	32	3.5	33	72	25	90	41	0	0	58	0.98
1251692--1251776	32	2.6	32	83	9	91	42	0	0	57	0.98
1251708--1251772	20	3.6	19	69	26	52	43	0	0	56	0.99
1251647--1251752	44	2.5	42	79	11	117	44	0	1	52	1.18
1251669--1251774	27	3.7	27	72	22	83	40	0	0	59	0.97
1252087--1252140	12	4.5	12	81	11	58	38	0	0	61	0.96
1252066--1252111	17	2.7	18	80	16	53	43	0	0	56	0.99
1252075--1252135	30	2.0	31	83	3	79	42	0	0	57	0.98
1252118--1252155	19	2.0	20	89	5	60	39	0	0	60	0.97
1252405--1252469	3	23.0	3	73	17	50	32	0	0	67	0.91
1252378--1252468	42	2.2	42	82	7	105	35	0	0	64	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1252418--1252477	5	11.6	5	76	13	50	26	1	0	71	0.95
1252405--1252469	11	6.0	11	76	8	62	32	0	0	67	0.91
1252752--1252810	31	2.0	28	87	9	82	71	0	1	27	0.96
1253061--1253103	22	2.0	22	86	4	61	32	0	2	65	1.06
1253121--1253165	12	3.4	14	76	14	51	48	0	0	51	1.00
1253465--1253519	22	2.6	22	85	5	69	63	0	1	34	1.05
1253544--1253583	16	2.6	16	92	4	64	50	0	2	47	1.14
1253857--1253930	24	3.1	24	83	11	89	32	2	0	64	1.07
1253858--1253930	11	6.3	11	73	17	67	31	2	0	65	1.06
1254019--1254076	22	2.5	23	78	15	59	31	3	5	60	1.35
1255520--1255557	13	3.1	13	85	7	53	55	0	2	42	1.14
1258066--1258127	25	2.4	25	78	13	63	43	1	0	54	1.09
1258117--1258177	25	2.5	23	73	19	61	36	4	0	59	1.19
1258863--1258926	28	2.3	29	81	8	78	40	0	0	59	0.97
1264528--1264612	36	2.4	36	80	3	93	48	0	3	48	1.18
1264892--1264930	3	13.0	3	100	0	78	33	0	0	66	0.92
1265461--1265502	17	2.5	17	85	14	52	40	0	0	59	0.97
1266327--1266402	30	2.5	30	81	12	77	57	0	10	31	1.32
1266977--1267094	4	29.5	4	91	0	137	40	0	9	50	1.35
1273003--1273051	13	3.7	13	75	2	53	55	0	0	44	0.99
1273216--1273266	20	2.5	20	78	12	52	56	0	1	41	1.10
1276605--1276660	29	1.9	28	85	7	76	44	7	8	39	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1276774--1276832	23	2.5	22	84	10	73	35	0	0	64	0.94
1276798--1276852	14	4.0	14	84	9	53	41	0	0	58	0.98
1276796--1276854	19	3.1	19	76	13	59	42	0	0	57	0.98
1278028--1278081	23	2.5	22	80	11	67	44	0	1	53	1.11
1278497--1278602	28	3.9	27	70	13	83	47	0	0	51	1.07
1278677--1278713	16	2.4	17	82	17	53	51	5	0	43	1.24
1278695--1278758	28	2.3	27	83	5	74	62	3	0	34	1.11
1279189--1279218	3	10.0	3	100	0	60	33	0	0	66	0.92
1279600--1279631	16	2.1	16	94	5	57	53	0	0	46	1.00
1279676--1279700	11	2.3	11	100	0	50	24	0	0	76	0.80
1282744--1282786	21	2.0	21	95	0	77	30	9	13	46	1.75
1283603--1283635	16	2.0	17	88	5	50	51	0	0	48	1.00
1287116--1287163	21	2.4	19	83	16	62	62	0	0	37	0.95
1288958--1288997	20	2.0	20	85	4	55	65	0	0	35	0.93
1288997--1289032	17	2.1	17	94	0	63	41	2	2	52	1.30
1290072--1290101	15	2.0	15	93	0	51	43	0	0	56	0.99
1290859--1290908	12	4.1	13	78	19	54	46	2	0	52	1.12
1291176--1291252	37	2.1	38	85	2	102	53	0	0	46	1.00
1291706--1291745	20	2.2	17	86	13	53	55	2	2	40	1.27
1292190--1292250	27	2.2	28	79	5	70	52	1	0	45	1.10
1295221--1295258	4	9.5	4	100	0	76	23	0	26	50	1.50
1296334--1296375	2	21.0	2	100	0	84	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1296571--1296625	27	2.1	26	89	3	83	45	0	0	54	0.99
1296582--1296643	25	2.4	25	83	5	70	48	0	1	50	1.10
1296860--1296910	17	2.8	17	88	8	66	45	0	3	50	1.20
1296907--1296934	8	3.5	8	100	0	56	25	0	0	75	0.81
1296902--1296943	16	2.6	16	78	14	59	33	0	0	66	0.92
1296949--1297005	23	2.5	24	81	16	68	59	5	0	35	1.20
1296944--1297006	25	2.6	24	78	17	67	60	4	0	34	1.18
1297200--1297241	17	2.4	18	85	14	54	42	0	0	57	0.99
1302721--1302778	28	2.2	27	85	14	77	50	0	0	50	1.00
1303510--1303534	12	2.1	12	100	0	50	32	8	12	48	1.69

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