genome.fa.s365.2.7.7.80.10.50.1000.8.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: Scaffold365
Parameters: 2 7 7 80 10 50 1000
Length:  1826335

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

This is table  8  of  11  ( 1288 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)
1188702--1188864	46	3.5	46	81	5	175	28	31	14	25	1.95
1189066--1189182	29	4.1	28	75	7	110	31	29	17	21	1.96
1189073--1189191	57	2.1	57	90	0	184	28	30	19	21	1.98
1189087--1189191	28	3.7	28	78	2	111	31	30	19	19	1.96
1189199--1189290	27	3.5	27	88	2	134	26	33	11	28	1.92
1189423--1189644	92	2.4	92	91	0	363	24	22	18	34	1.96
1189281--1189744	43	9.8	48	74	10	291	24	24	17	32	1.97
1189274--1189597	135	2.3	138	81	6	359	24	24	19	32	1.98
1190440--1190557	19	6.8	18	71	24	94	34	13	16	34	1.88
1190482--1190538	13	3.9	13	76	24	60	35	14	17	33	1.90
1190463--1190565	32	3.2	32	98	0	197	33	12	18	35	1.89
1196067--1196337	51	5.3	51	84	0	310	29	24	11	33	1.91
1196274--1196420	79	1.9	79	85	5	208	29	29	12	27	1.93
1196405--1196521	51	2.3	51	83	0	153	28	24	12	34	1.92
1196223--1196462	130	1.8	130	80	5	288	30	26	12	31	1.93
1196405--1196719	130	2.4	131	80	7	329	26	24	13	34	1.93
1200999--1201070	22	3.4	20	80	16	58	6	20	1	70	1.18
1201526--1201952	166	2.6	164	82	9	458	51	7	9	31	1.63
1202768--1202962	67	2.9	67	82	3	205	25	17	20	37	1.94
1204663--1204715	20	2.7	20	80	13	65	32	13	16	37	1.88
1204754--1204809	20	2.8	19	86	5	76	39	14	10	35	1.81
1209693--1209744	21	2.5	21	84	9	63	42	15	13	28	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1218046--1218121	39	1.9	39	100	0	152	40	7	31	19	1.80
1224384--1224437	22	2.3	23	75	15	56	7	12	9	70	1.33
1224435--1224466	8	3.9	8	92	8	55	3	0	9	87	0.64
1224427--1224468	9	4.6	9	82	5	57	2	0	11	85	0.68
1224427--1224468	19	2.3	18	87	4	57	2	0	11	85	0.68
1224437--1224475	17	2.3	17	86	8	53	5	2	10	82	0.93
1229879--1229904	13	2.0	13	100	0	52	30	15	15	38	1.88
1232280--1232326	21	2.3	21	76	23	55	42	4	19	34	1.70
1232448--1232512	13	5.0	13	94	0	112	35	15	18	30	1.92
1232448--1232511	26	2.5	26	100	0	128	34	15	18	31	1.93
1232498--1232576	20	3.7	20	78	15	77	44	15	15	25	1.85
1236429--1236473	21	2.1	21	84	8	56	22	20	4	53	1.63
1238691--1238716	13	2.0	13	100	0	52	30	15	15	38	1.88
1238668--1238734	33	2.1	33	86	8	93	28	16	14	40	1.88
1242598--1242693	36	2.9	32	80	17	99	33	25	10	31	1.89
1242982--1243006	13	1.9	13	100	0	50	36	16	16	32	1.90
1246476--1246530	21	2.6	21	85	0	65	18	21	0	60	1.37
1246491--1246534	21	2.1	21	91	0	70	20	18	0	61	1.35
1248552--1248654	53	2.0	52	92	1	170	37	13	16	32	1.88
1249461--1249496	18	2.0	18	94	0	63	30	22	13	33	1.93
1256734--1256760	13	2.1	13	100	0	54	29	14	14	40	1.86
1259030--1259332	159	1.9	159	98	0	588	40	11	15	32	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1265647--1265709	32	1.9	33	87	9	94	28	14	12	44	1.82
1265759--1265827	33	2.1	33	84	10	88	31	10	18	39	1.84
1278154--1278206	13	4.0	13	82	2	52	35	15	13	35	1.86
1278166--1278206	13	3.2	13	85	0	55	34	14	14	36	1.87
1278247--1278320	28	2.7	27	83	8	87	27	27	17	28	1.98
1278490--1278705	32	6.8	32	74	11	151	34	30	14	20	1.93
1278490--1278705	64	3.4	63	82	8	206	34	30	14	20	1.93
1278496--1278705	63	3.3	63	82	9	196	34	30	14	20	1.93
1278550--1278713	32	5.2	32	80	10	176	33	31	16	18	1.94
1278763--1279130	52	6.7	57	74	12	251	25	24	14	35	1.94
1278821--1279074	104	2.5	102	80	3	294	25	24	16	34	1.95
1279019--1279152	61	2.2	61	85	6	182	23	28	10	38	1.88
1279129--1279162	18	1.9	17	88	5	50	17	29	0	52	1.45
1282046--1282094	26	1.9	25	95	4	89	22	32	16	28	1.95
1284140--1284212	20	3.7	19	77	20	71	34	13	15	36	1.86
1286440--1286490	16	3.0	16	82	8	57	78	0	19	1	0.85
1286440--1286490	23	2.3	22	83	12	68	78	0	19	1	0.85
1286444--1286489	24	2.0	23	86	4	65	78	0	19	2	0.86
1286447--1286482	10	3.5	10	92	3	54	77	0	22	0	0.76
1287175--1287663	142	3.5	137	81	7	542	34	12	10	42	1.77
1287175--1287668	141	3.5	140	81	7	558	34	12	10	42	1.76
1287545--1287772	109	2.1	109	87	1	323	29	13	12	44	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1287404--1287912	249	2.0	249	86	4	695	33	13	11	41	1.80
1287658--1288189	140	3.8	140	85	5	673	34	12	11	41	1.79
1287263--1288023	391	1.9	392	87	2	1111	34	13	10	42	1.78
1288278--1288872	155	3.9	155	81	4	559	24	18	20	36	1.95
1288383--1288962	303	1.9	306	79	6	665	25	18	19	37	1.94
1297674--1297730	13	3.9	13	76	24	60	35	14	15	35	1.88
1297654--1297754	32	3.1	32	92	4	159	34	12	15	36	1.86
1297689--1297749	19	3.5	19	71	28	64	34	13	14	37	1.85
1297825--1298005	52	3.5	52	97	0	335	34	18	18	27	1.95
1302326--1302351	13	2.0	13	100	0	52	38	15	15	30	1.88
1302376--1302430	20	2.8	20	94	0	92	34	12	14	38	1.84
1308909--1309232	161	2.0	159	78	6	334	36	10	26	26	1.89
1309060--1309334	78	3.5	77	77	6	266	35	12	25	27	1.91
1309099--1309259	79	2.0	78	81	2	187	36	12	24	26	1.91
1309206--1309458	132	1.9	133	82	4	323	37	10	23	28	1.88
1309336--1309540	79	2.6	76	81	10	234	35	10	24	29	1.89
1309155--1309539	211	1.8	212	82	6	494	35	11	24	27	1.91
1312091--1312144	20	2.7	20	82	2	63	33	16	9	40	1.80
1312628--1312786	71	2.3	69	85	6	205	38	14	21	25	1.91
1313016--1313128	44	2.6	43	81	2	127	42	9	27	20	1.83
1313158--1313510	35	9.8	35	76	6	321	34	15	25	24	1.94
1313158--1313517	108	3.3	107	87	3	508	35	14	25	24	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1313697--1313925	60	3.6	60	70	16	172	33	16	23	27	1.95
1313620--1313985	133	2.8	132	86	2	491	33	14	24	27	1.94
1314906--1314954	11	4.6	11	85	7	66	4	4	6	85	0.81
1314907--1314953	20	2.3	19	82	13	58	4	4	6	85	0.84
1325321--1325371	20	2.5	21	83	6	68	27	15	13	43	1.85
1326031--1326766	52	13.8	52	73	9	405	36	15	24	23	1.93
1325989--1326501	165	3.2	163	75	7	467	37	15	23	23	1.93
1327052--1327103	20	2.5	21	78	3	61	36	11	15	36	1.84
1327643--1327681	12	3.2	12	85	0	51	30	28	2	38	1.70
1334387--1334458	36	1.9	38	86	5	103	69	9	16	4	1.31
1338360--1338412	19	2.7	21	88	8	76	41	16	15	26	1.88
1344224--1344283	19	3.5	18	74	25	67	33	13	16	36	1.88
1344207--1344296	32	2.8	32	91	0	144	32	15	16	35	1.91
1344239--1344265	13	2.1	13	100	0	54	29	14	14	40	1.86
1349453--1349483	3	10.3	3	92	0	53	29	35	0	35	1.58
1351071--1351124	20	2.7	20	91	5	83	33	18	16	31	1.93
1351173--1351225	19	2.7	19	82	8	63	43	16	13	26	1.85
1352922--1353021	34	3.0	33	85	7	123	20	17	32	31	1.95
1358944--1358974	14	2.2	14	100	0	62	29	6	35	29	1.82
1360971--1361204	95	2.4	97	83	5	287	32	14	23	29	1.94
1370016--1370146	54	2.4	54	87	1	190	41	10	22	25	1.86
1370342--1370368	10	2.7	10	100	0	54	0	0	7	92	0.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1370363--1370409	18	2.6	18	86	3	58	2	14	0	82	0.75
1371037--1371066	16	1.9	15	93	6	51	83	0	0	16	0.65
1379701--1379831	54	2.4	54	87	1	190	41	10	22	25	1.86
1380026--1380095	1	70.0	1	78	0	50	1	10	2	85	0.76
1380026--1380054	11	2.6	11	100	0	58	0	0	6	93	0.36
1380026--1380095	18	3.9	17	80	14	61	1	10	2	85	0.76
1380027--1380094	10	6.9	10	73	9	59	1	10	2	85	0.77
1380723--1380752	16	1.9	15	93	6	51	83	0	0	16	0.65
1389281--1389469	82	2.3	82	79	10	192	35	12	24	26	1.92
1389398--1389528	54	2.4	54	85	1	181	41	10	22	25	1.85

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