genome.fa.s69.2.7.7.80.10.50.1000.8.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: Scaffold69
Parameters: 2 7 7 80 10 50 1000
Length:  2104606

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

This is table  8  of  13  ( 1482 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)
1202310--1202498	66	2.8	65	91	4	290	17	29	6	46	1.73
1204305--1204331	2	13.5	2	100	0	54	48	0	0	51	1.00
1204696--1204854	34	4.7	34	97	0	291	41	36	0	22	1.54
1204743--1204844	25	4.4	25	65	28	80	41	38	0	20	1.53
1209579--1209712	34	3.9	34	93	0	205	41	35	0	23	1.54
1210063--1210208	75	1.9	75	81	8	172	32	14	7	45	1.73
1211481--1211548	14	4.8	14	76	3	64	29	14	16	39	1.88
1211481--1211551	29	2.5	29	81	2	81	28	14	18	39	1.89
1211502--1211563	29	2.1	29	90	0	97	22	11	22	43	1.85
1212311--1212376	32	2.1	32	100	0	132	59	15	13	12	1.62
1218146--1218198	18	2.7	20	75	21	58	28	1	15	54	1.51
1218324--1218367	13	3.8	13	72	27	53	27	13	18	40	1.88
1218325--1218378	21	2.6	21	100	0	108	29	14	18	37	1.91
1218487--1218536	21	2.4	22	83	9	61	32	20	0	48	1.50
1220669--1220734	20	3.7	20	73	26	83	31	18	18	31	1.95
1220690--1220714	13	1.9	13	100	0	50	36	16	16	32	1.90
1220670--1220767	33	3.0	33	92	5	155	33	17	18	30	1.94
1222672--1222746	20	3.8	20	74	0	69	36	12	10	41	1.77
1224472--1224593	61	2.0	61	96	0	226	28	7	20	43	1.79
1228130--1228163	5	6.6	5	86	6	50	76	0	0	23	0.79
1228134--1228166	11	3.1	11	82	8	50	66	0	0	33	0.92
1229880--1229988	56	1.9	56	94	0	191	44	15	15	24	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1233700--1233766	21	3.0	21	79	14	73	41	0	0	58	0.98
1235516--1235572	28	2.0	28	100	0	114	28	14	7	50	1.68
1237075--1237156	27	3.0	27	78	12	69	62	4	1	31	1.24
1237096--1237231	27	5.2	26	67	15	77	61	2	0	35	1.17
1237140--1237188	18	2.9	18	72	27	54	61	2	0	36	1.08
1237703--1237755	19	2.6	21	82	11	67	58	0	0	41	0.98
1239114--1239144	2	15.5	2	100	0	62	51	0	48	0	1.00
1245538--1245576	18	2.2	18	90	4	62	48	2	0	48	1.15
1245587--1245667	28	2.9	28	75	15	78	61	1	2	34	1.17
1245586--1245673	36	2.5	36	85	5	117	61	1	2	35	1.16
1245808--1245866	16	3.8	16	79	2	66	59	20	0	20	1.38
1245783--1245834	22	2.4	22	76	0	59	53	26	0	19	1.45
1245783--1245840	22	2.6	21	73	10	53	53	25	0	20	1.46
1246067--1246193	65	2.0	64	89	4	193	51	2	0	44	1.19
1246153--1246195	21	2.0	21	82	8	52	44	4	0	51	1.22
1247324--1247348	11	2.3	11	100	0	50	48	8	0	44	1.32
1249845--1249883	13	2.9	15	71	28	50	12	15	0	71	1.14
1251040--1251270	77	3.0	76	70	14	179	29	9	18	43	1.81
1251041--1251465	155	2.8	153	80	7	409	28	11	18	41	1.86
1252242--1252290	22	2.2	22	88	0	71	42	10	18	28	1.83
1252327--1252389	20	3.0	20	77	8	63	44	6	20	28	1.76
1255597--1255671	21	3.5	20	77	13	71	21	21	1	56	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1256030--1256064	17	2.1	17	100	0	70	5	22	11	60	1.52
1257720--1257868	73	2.0	73	89	0	226	36	10	23	28	1.88
1260271--1260311	20	2.0	20	85	0	55	4	17	21	56	1.60
1260675--1260931	80	3.2	80	84	1	291	21	14	11	52	1.73
1261045--1261123	33	2.4	33	85	8	99	25	1	1	72	1.00
1262443--1262493	25	2.0	25	84	0	66	47	9	7	35	1.66
1265715--1265912	92	2.2	92	84	3	247	36	19	6	37	1.77
1267262--1267316	25	2.3	23	81	12	58	25	3	1	69	1.15
1267322--1267369	24	2.0	24	95	0	87	25	8	27	39	1.84
1268990--1269989	153	6.5	154	73	9	441	24	13	19	42	1.87
1269481--1270380	156	5.8	152	74	8	479	24	15	18	41	1.89
1270028--1270391	154	2.4	154	80	2	381	26	15	16	41	1.88
1272374--1272533	84	1.9	83	83	6	207	26	17	8	48	1.75
1272956--1272999	23	1.9	23	90	9	72	54	0	0	45	0.99
1272956--1272988	16	2.0	17	94	5	59	54	0	0	45	0.99
1274495--1274525	2	15.5	2	100	0	62	48	0	0	51	1.00
1284066--1284555	79	6.2	77	75	6	349	33	12	24	29	1.92
1284064--1284555	158	3.1	154	79	4	518	33	13	24	29	1.93
1284487--1284587	51	2.0	51	90	3	159	33	12	27	25	1.93
1286557--1286611	20	2.7	20	82	2	65	49	12	12	25	1.76
1286639--1286712	21	3.6	20	83	3	85	29	14	12	43	1.82
1286750--1286791	21	2.0	21	100	0	84	38	19	19	23	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1287499--1287687	58	3.3	57	76	9	159	48	15	10	25	1.76
1289945--1289997	20	2.6	21	79	11	65	35	13	22	28	1.92
1291085--1291155	28	2.5	29	77	4	83	26	14	30	28	1.95
1291142--1291240	51	2.0	51	89	2	155	33	10	27	29	1.89
1293635--1293664	13	2.3	13	94	0	51	40	10	16	33	1.82
1300514--1300573	24	2.4	24	84	13	77	35	16	8	40	1.79
1300856--1300900	22	2.1	21	88	12	65	60	0	0	40	0.97
1303307--1303339	13	2.6	13	90	4	50	75	6	18	0	1.00
1303527--1303568	20	2.0	21	86	4	59	45	2	14	38	1.58
1305686--1305715	2	15.0	2	100	0	60	50	0	0	50	1.00
1309290--1309352	28	2.2	28	91	0	99	31	12	12	42	1.81
1311936--1311989	18	3.2	17	84	7	74	85	0	12	1	0.69
1311936--1311987	13	4.0	12	79	16	59	86	0	11	1	0.65
1311940--1311989	25	2.0	24	88	11	75	86	0	12	2	0.67
1311938--1311996	30	2.0	29	83	9	75	83	0	15	1	0.74
1312639--1312758	59	2.0	59	84	9	156	26	10	15	48	1.76
1312884--1313284	78	5.1	79	75	7	284	32	13	17	36	1.88
1312938--1313284	157	2.2	155	81	6	398	32	13	17	36	1.89
1312935--1313368	78	5.6	78	76	5	360	31	14	18	36	1.90
1313834--1314032	99	2.0	99	100	0	398	32	17	13	37	1.88
1316914--1316941	2	14.0	2	100	0	56	0	50	0	50	1.00
1322659--1322686	13	2.2	13	100	0	56	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)
1336495--1336559	25	2.6	25	80	14	80	72	0	26	1	0.94
1336484--1336566	36	2.3	35	81	6	94	75	0	22	1	0.87
1336509--1336559	23	2.2	22	86	13	75	70	0	29	0	0.87
1340016--1340060	18	2.5	18	83	16	58	28	0	0	71	0.87
1340829--1340885	25	2.3	25	85	11	73	78	5	0	15	0.91
1341118--1341165	20	2.2	20	89	10	69	66	0	0	33	0.92
1346200--1346255	20	2.8	20	88	0	85	50	10	12	26	1.73
1350231--1350277	2	23.5	2	100	0	94	48	0	0	51	1.00
1351641--1351686	2	23.0	2	100	0	92	50	0	0	50	1.00
1352162--1352210	20	2.4	20	86	10	64	51	0	18	30	1.47
1352726--1352762	2	18.5	2	100	0	74	51	0	0	48	1.00
1353462--1353606	69	2.1	65	77	13	157	51	10	8	28	1.66
1356032--1356440	166	2.5	165	81	5	486	28	10	9	52	1.66
1355970--1356530	166	3.4	163	74	13	467	28	10	10	51	1.68
1357845--1357892	20	2.4	20	86	6	62	68	4	4	22	1.24
1363577--1363713	43	3.3	43	66	25	121	28	16	18	36	1.93
1363556--1363735	82	2.2	82	96	0	333	30	15	17	36	1.91
1363688--1363777	13	6.0	13	71	26	63	33	17	14	34	1.90
1363702--1363796	19	5.6	19	72	27	106	34	18	12	33	1.89
1363689--1363796	32	3.4	32	98	0	207	34	18	13	33	1.90
1364562--1365698	48	24.7	48	73	14	733	29	18	26	25	1.98
1364809--1365092	39	6.7	40	69	15	153	27	20	26	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1364848--1365696	268	3.1	272	81	9	806	29	18	26	26	1.98
1365022--1365696	138	4.9	135	79	11	698	29	18	26	25	1.98
1364765--1365284	87	5.9	87	83	7	591	29	18	26	25	1.98
1365394--1365650	39	6.0	40	74	14	176	26	19	27	27	1.99
1365249--1365697	88	5.0	88	84	7	548	29	18	26	26	1.98
1365250--1365702	179	2.5	179	92	1	737	29	18	26	26	1.98
1365715--1365875	28	5.6	28	83	7	164	16	15	31	36	1.90
1365720--1365875	56	2.8	56	82	5	206	16	15	31	36	1.90
1365874--1365972	34	2.9	34	80	5	103	44	14	23	18	1.86
1365908--1366060	61	2.5	61	86	0	225	36	15	30	18	1.91

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