genome.fa.s138.2.7.7.80.10.50.1000.9.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: Scaffold138
Parameters: 2 7 7 80 10 50 1000
Length:  1735418

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

This is table  9  of  11  ( 1296 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)
1239429--1239492	19	3.7	19	74	23	77	34	12	15	37	1.85
1239430--1239500	32	2.2	32	97	0	133	33	12	16	36	1.87
1239449--1239473	13	1.9	13	100	0	50	36	16	16	32	1.90
1239544--1239569	13	2.0	13	100	0	52	30	15	15	38	1.88
1239524--1239590	33	2.0	33	88	0	98	25	14	16	43	1.86
1241936--1242051	51	2.3	51	80	7	137	30	20	13	35	1.92
1242039--1242233	103	1.9	105	82	3	250	25	26	17	30	1.97
1242173--1242393	51	4.3	51	81	1	253	31	24	11	32	1.91
1242486--1242540	28	1.9	29	85	3	76	20	29	20	30	1.97
1248716--1250049	55	23.6	54	83	8	1295	28	27	19	24	1.99
1249722--1249866	26	5.3	26	63	22	75	28	32	18	20	1.96
1249949--1250062	55	2.1	55	90	3	176	28	28	21	21	1.98
1250811--1250874	21	3.0	21	77	8	76	40	14	10	34	1.80
1250911--1250974	19	3.7	19	74	23	77	34	12	15	37	1.85
1250912--1250982	32	2.2	32	97	0	133	33	12	16	36	1.87
1250931--1250955	13	1.9	13	100	0	50	36	16	16	32	1.90
1251026--1251051	13	2.0	13	100	0	52	30	15	15	38	1.88
1253523--1253721	103	1.9	105	81	3	240	27	27	14	30	1.95
1253658--1253878	52	4.3	51	81	2	244	32	25	9	32	1.88
1253658--1253878	104	2.1	103	84	2	282	32	25	9	32	1.88
1253861--1253937	28	2.7	29	88	4	104	24	33	18	23	1.96
1253891--1254123	77	3.0	79	72	10	217	27	27	13	31	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1253812--1254011	107	1.9	107	82	5	251	28	26	15	30	1.96
1255411--1255483	27	2.7	27	86	2	101	24	9	19	46	1.79
1255575--1255627	13	4.1	13	85	0	61	9	28	11	50	1.69
1257148--1257237	27	3.5	26	83	7	103	48	20	6	24	1.73
1258857--1258891	2	18.0	2	88	5	54	48	2	0	48	1.16
1259091--1259121	12	2.7	12	95	5	55	41	0	0	58	0.98
1260894--1260936	21	2.0	21	95	0	77	53	4	2	39	1.34
1262865--1262928	32	2.0	33	87	9	96	53	6	0	40	1.26
1268386--1268412	2	13.5	2	100	0	54	0	0	48	51	1.00
1273748--1273792	20	2.3	19	88	11	65	66	0	0	33	0.92
1273748--1273792	19	2.3	19	85	11	56	66	0	0	33	0.92
1273825--1273873	24	2.0	24	84	7	64	53	6	8	32	1.55
1278992--1279034	3	14.7	3	85	4	61	69	0	30	0	0.88
1278992--1279041	15	3.5	15	73	15	52	68	0	32	0	0.90
1279374--1279411	2	19.0	2	94	0	67	47	0	2	50	1.15
1279446--1279483	19	2.1	18	90	5	58	50	0	0	50	1.00
1279462--1279508	24	2.0	24	82	0	58	38	2	0	59	1.09
1279512--1279553	19	2.2	20	87	12	70	54	0	0	45	0.99
1279518--1279558	19	2.2	18	91	4	64	53	0	2	43	1.13
1281153--1281233	29	2.7	30	77	7	85	43	1	11	44	1.47
1283602--1283689	13	6.8	12	70	21	54	60	1	1	37	1.12
1283607--1283688	26	3.0	27	77	13	80	58	1	1	39	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1284224--1284348	62	2.0	62	96	0	232	44	20	11	24	1.84
1288950--1289078	52	2.5	52	91	5	215	28	17	17	36	1.93
1289087--1289111	13	1.9	13	100	0	50	36	16	16	32	1.90
1289156--1289226	32	2.2	32	87	7	108	36	16	12	33	1.87
1290950--1291125	48	3.7	48	89	1	255	34	17	28	19	1.95
1291253--1291645	28	13.5	28	84	7	283	23	17	28	29	1.97
1291254--1291506	111	2.3	111	85	4	332	24	17	29	28	1.97
1291253--1291518	83	3.2	83	83	3	327	24	16	29	28	1.97
1291475--1291710	32	7.4	32	90	2	361	21	18	28	31	1.97
1291664--1291758	48	2.0	48	95	0	172	21	15	30	32	1.94
1291712--1292194	32	15.5	32	84	6	582	21	19	28	30	1.97
1291633--1291790	80	2.0	80	89	2	246	21	17	29	32	1.96
1291600--1291818	112	2.0	112	90	1	350	20	17	29	32	1.96
1291568--1292130	144	4.0	144	78	14	581	22	18	28	30	1.97
1291740--1292590	28	28.9	30	84	6	259	24	17	30	27	1.97
1292181--1292637	166	2.8	166	91	1	713	28	14	32	24	1.94
1292181--1292639	28	16.6	28	87	5	598	28	14	32	24	1.94
1292181--1292639	55	8.3	55	87	4	647	28	14	32	24	1.94
1293946--1293994	22	2.3	22	85	3	64	6	12	6	75	1.17
1293975--1294016	16	2.6	16	85	7	59	4	14	9	71	1.28
1301552--1301753	96	2.1	96	87	5	284	38	10	20	31	1.86
1305075--1305384	65	5.0	63	76	12	262	18	19	30	31	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1305115--1305384	65	4.3	64	80	9	288	19	19	30	31	1.96
1305054--1305405	126	2.8	123	75	11	324	19	18	29	32	1.95
1305519--1305593	28	2.6	30	78	8	91	28	21	24	26	1.99
1305540--1305604	28	2.3	28	81	0	67	33	20	18	27	1.96
1305568--1305715	29	5.1	29	74	4	102	23	18	27	31	1.97
1305568--1305723	58	2.7	58	74	2	152	25	17	28	29	1.97
1305899--1305946	13	3.8	13	75	5	53	37	8	8	45	1.64
1306079--1306190	13	8.6	13	70	14	70	34	16	16	31	1.92
1306125--1306186	25	2.5	24	76	5	61	40	17	11	30	1.85
1306875--1306955	32	2.5	32	89	0	117	27	18	13	40	1.88
1309065--1309114	21	2.4	21	80	9	57	50	0	24	26	1.50
1312519--1312589	32	2.2	32	92	0	115	26	19	12	40	1.88
1313565--1313637	21	3.5	21	85	7	87	39	12	17	30	1.87
1313675--1313794	51	2.3	52	81	1	143	29	11	14	45	1.80
1313675--1313813	52	2.7	50	77	5	143	29	11	13	45	1.79
1316214--1316573	78	4.6	79	73	8	241	27	20	12	39	1.88
1316586--1316850	79	3.4	78	76	7	225	26	22	14	36	1.93
1316393--1316797	220	1.8	221	79	5	471	26	21	12	39	1.89
1320217--1320270	20	2.7	20	94	0	90	27	16	9	46	1.78
1320289--1320339	20	2.5	20	96	0	93	29	17	11	41	1.85
1324509--1324547	8	4.6	8	84	12	51	79	0	0	20	0.73
1324509--1324547	18	2.3	16	86	8	51	79	0	0	20	0.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1324766--1324797	16	2.0	16	93	0	55	34	18	28	18	1.95
1324966--1325220	56	4.6	55	87	0	339	43	31	10	13	1.79
1324966--1325220	111	2.3	110	87	3	359	43	31	10	13	1.79
1325852--1325982	65	2.0	65	95	0	235	25	16	24	34	1.95
1332664--1332716	20	2.7	19	88	11	72	37	13	18	30	1.89
1337149--1337210	33	1.9	32	86	3	88	40	19	14	25	1.90
1339651--1339679	13	2.2	13	100	0	58	41	17	13	27	1.87
1341605--1341657	20	2.6	21	84	3	72	39	15	16	28	1.89
1341709--1341733	13	1.9	13	100	0	50	32	16	16	36	1.90
1341689--1341756	33	2.1	32	86	2	91	35	16	14	33	1.89
1348081--1348121	22	2.0	21	86	13	59	34	21	4	39	1.75
1349633--1349657	13	1.9	13	100	0	50	32	16	16	36	1.90
1349645--1349697	20	2.6	21	84	3	72	39	15	16	28	1.89
1349833--1349871	20	1.9	21	94	5	71	35	20	10	33	1.86
1350521--1350588	33	2.1	32	83	2	82	33	17	14	33	1.91
1354651--1354680	15	2.0	15	93	0	51	56	16	13	13	1.67
1356745--1356783	13	3.0	13	96	0	69	30	17	15	35	1.91
1359340--1359364	13	1.9	13	100	0	50	32	16	16	36	1.90
1359320--1359383	33	2.0	33	90	3	103	37	18	12	31	1.88
1365951--1366489	55	9.4	54	80	10	542	26	29	21	22	1.99
1365951--1366489	110	4.7	111	82	9	604	26	29	21	22	1.99
1367382--1367445	19	3.7	19	74	23	77	32	10	18	37	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1367383--1367458	32	2.4	32	95	0	134	32	13	18	35	1.89
1367402--1367459	13	4.0	13	74	23	53	34	15	17	32	1.91
1368106--1368136	13	2.4	13	94	0	53	35	12	16	35	1.87
1368181--1368236	19	2.8	20	81	8	69	35	16	14	33	1.88
1370347--1370405	26	2.1	28	81	9	68	25	1	20	52	1.56
1370559--1370599	13	3.2	13	92	0	73	31	14	14	39	1.87
1372431--1372534	51	2.0	50	82	10	122	36	1	24	37	1.67
1373053--1373105	20	2.7	20	91	2	81	30	15	18	35	1.92
1373134--1373200	33	2.0	33	91	5	109	37	13	16	32	1.88
1373148--1373180	13	2.5	13	95	0	57	36	15	15	33	1.88

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