genome.fa.s24.2.7.7.80.10.50.1000.7.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: Scaffold24
Parameters: 2 7 7 80 10 50 1000
Length:  3006277

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   

This is table  7  of  19  ( 2215 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)
1211397--1211443	4	10.8	4	91	8	58	78	0	0	21	0.75
1211396--1211443	13	3.6	13	86	13	71	79	0	0	20	0.74
1211396--1211444	5	10.8	5	91	8	63	79	0	0	20	0.73
1215519--1215557	20	1.9	21	89	5	62	46	0	0	53	1.00
1215525--1215564	20	2.0	20	85	9	55	52	0	0	47	1.00
1215531--1215624	32	2.8	33	75	9	100	43	1	1	54	1.14
1215896--1215946	23	2.2	22	80	10	57	68	3	1	25	1.17
1217658--1217691	16	2.1	16	88	0	50	52	5	2	38	1.41
1218103--1218166	29	2.2	29	97	0	119	54	3	0	42	1.16
1218111--1218174	29	2.2	29	91	2	101	59	4	0	35	1.18
1218987--1219044	27	2.1	27	87	6	82	67	0	0	32	0.91
1220186--1220270	30	2.9	29	71	20	70	45	0	1	52	1.08
1220196--1220240	16	3.0	15	78	9	56	37	0	0	62	0.96
1220705--1220753	17	2.7	18	84	15	66	65	0	0	34	0.93
1220716--1220759	20	2.1	21	84	12	56	65	0	0	34	0.93
1221471--1221503	9	3.7	9	88	12	50	24	0	0	75	0.80
1221862--1221900	17	2.3	17	86	8	53	30	0	0	69	0.89
1224373--1224415	18	2.3	20	77	22	58	65	0	4	30	1.13
1224600--1224641	3	14.0	3	94	0	75	30	0	0	69	0.89
1225172--1225204	6	5.7	6	92	7	59	15	0	0	84	0.61
1226716--1226741	12	2.2	12	100	0	52	23	19	7	50	1.73
1229210--1229413	79	2.6	79	80	3	207	25	29	15	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1230429--1230478	20	2.5	21	75	15	52	52	2	0	46	1.12
1233327--1233357	2	15.5	2	93	0	53	48	0	0	51	1.00
1236926--1237043	31	3.9	31	87	8	163	25	28	11	33	1.91
1236926--1237043	59	2.0	62	85	8	163	25	28	11	33	1.91
1238386--1238414	3	9.7	3	100	0	58	68	0	0	31	0.89
1238753--1238789	19	1.9	19	94	0	65	45	0	8	45	1.32
1238922--1238954	2	16.5	2	93	0	57	48	0	3	48	1.17
1241066--1241115	14	3.5	14	81	13	57	68	0	32	0	0.90
1241060--1241122	18	3.6	18	81	14	69	66	0	33	0	0.92
1243844--1243882	16	2.4	16	82	0	51	51	0	2	46	1.14
1247380--1247432	25	2.1	25	82	6	63	58	3	1	35	1.27
1249005--1249056	24	2.2	24	83	13	63	51	0	0	48	1.00
1250058--1250115	21	2.8	22	75	19	61	60	1	1	36	1.17
1258186--1258212	3	9.0	3	100	0	54	33	33	0	33	1.58
1259372--1259402	3	10.3	3	92	0	53	64	3	32	0	1.09
1263120--1263166	16	2.9	16	80	0	58	46	2	0	51	1.13
1263143--1263203	26	2.4	25	81	10	70	49	3	3	44	1.35
1264676--1264723	20	2.5	19	83	6	60	58	2	2	37	1.22
1264934--1264969	3	12.0	3	100	0	72	66	0	0	33	0.92
1264972--1264998	3	9.0	3	100	0	54	33	0	0	66	0.92
1265254--1265299	20	2.3	21	85	7	60	43	6	0	50	1.28
1273217--1273257	3	14.0	3	94	5	75	68	0	0	31	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1273317--1273444	16	8.1	16	70	11	50	38	3	4	53	1.40
1273357--1273447	16	5.8	16	73	10	53	39	5	5	49	1.49
1274421--1274462	19	2.2	19	86	0	57	33	0	0	66	0.92
1280721--1280905	93	2.0	93	83	2	237	28	21	20	30	1.98
1281749--1281796	21	2.5	20	83	12	64	50	0	0	50	1.00
1281870--1281907	14	2.6	15	83	8	51	47	0	0	52	1.00
1282597--1282634	18	2.1	18	85	9	51	42	0	0	57	0.98
1282587--1282649	32	1.9	33	90	3	101	41	1	0	57	1.08
1282586--1282646	20	3.5	19	71	28	55	44	1	0	54	1.10
1282801--1282851	16	3.2	16	77	5	50	50	1	0	47	1.12
1283392--1283424	14	2.4	14	94	0	57	33	0	0	66	0.92
1288370--1288422	21	2.5	21	85	11	56	33	0	0	66	0.92
1289851--1289891	21	2.0	21	85	0	55	24	0	7	68	1.15
1296524--1296568	2	22.5	2	100	0	90	48	0	0	51	1.00
1297497--1297549	18	3.2	18	70	26	53	54	7	0	37	1.29
1298758--1298810	22	2.4	22	81	9	63	45	3	0	50	1.19
1310278--1310371	24	4.0	24	77	12	88	45	1	4	48	1.28
1310262--1310354	47	2.0	47	89	4	143	47	0	2	50	1.13
1310377--1310430	27	2.0	26	82	3	63	53	0	1	44	1.11
1313581--1313653	29	2.6	27	77	12	76	39	1	1	57	1.16
1313629--1313722	37	2.6	36	73	14	95	44	1	0	54	1.07
1314737--1315047	153	2.0	153	96	1	570	30	8	18	42	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1316196--1316223	2	14.0	2	100	0	56	50	0	0	50	1.00
1318248--1318328	29	2.8	28	78	12	76	58	0	0	41	0.98
1319053--1319099	13	3.5	13	88	2	67	40	0	0	59	0.97
1319230--1319258	2	14.5	2	100	0	58	51	0	0	48	1.00
1320530--1320571	15	2.6	16	85	7	50	73	0	0	26	0.83
1324334--1324413	29	2.7	28	75	7	70	37	0	1	61	1.04
1324355--1324410	28	2.0	28	82	0	67	32	0	1	66	1.03
1325382--1325422	21	1.9	22	90	5	66	51	2	0	46	1.14
1327976--1328178	49	4.1	50	85	3	232	30	12	4	51	1.61
1329495--1329530	18	2.0	18	89	10	56	33	2	2	61	1.25
1329587--1329631	23	1.9	23	90	4	72	42	0	0	57	0.98
1329816--1330031	38	5.7	38	88	0	297	29	14	29	26	1.95
1333559--1333712	38	4.1	38	93	3	256	26	14	31	27	1.95
1334290--1334359	28	2.3	29	85	9	97	45	0	0	54	0.99
1336722--1336836	48	2.4	48	82	8	144	35	7	5	51	1.53
1337233--1337371	38	3.7	38	88	0	179	30	13	26	28	1.94
1341946--1342123	38	4.7	38	89	0	212	28	14	29	27	1.95
1341928--1342022	38	2.9	31	72	20	75	30	11	25	32	1.91
1342722--1342765	16	2.8	16	86	10	63	47	2	0	50	1.13
1342729--1342765	17	2.2	17	90	4	58	43	2	0	54	1.14
1344397--1344425	2	14.5	2	100	0	58	51	0	0	48	1.00
1344696--1344729	14	2.3	15	85	5	52	50	2	0	47	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1345372--1345410	16	2.4	16	82	0	51	43	0	2	53	1.14
1345393--1345438	22	2.0	22	84	12	58	30	0	4	65	1.12
1345372--1345430	12	4.9	12	70	13	50	38	0	1	59	1.08
1347333--1347378	16	2.9	16	78	12	58	58	0	0	41	0.98
1347333--1347418	32	2.5	36	82	12	94	60	0	0	39	0.97
1348809--1348847	16	2.4	17	91	8	64	43	0	0	56	0.99
1350021--1350061	19	2.2	19	86	8	57	31	0	0	68	0.90
1353588--1353714	46	2.6	47	87	6	166	34	8	3	52	1.51
1358764--1358808	21	2.1	22	83	4	56	66	4	0	28	1.11
1358890--1358949	25	2.4	26	80	8	70	41	3	0	55	1.16
1358888--1358949	23	2.5	25	79	12	65	43	3	0	53	1.17
1358992--1359051	27	2.3	26	80	5	75	40	1	0	58	1.08
1359374--1359414	22	2.0	20	90	9	64	43	0	2	53	1.13
1359365--1359459	30	3.4	27	73	12	84	46	0	1	52	1.07
1361632--1361681	25	2.0	25	100	0	100	32	0	4	64	1.12
1361816--1361945	48	2.7	49	77	7	140	36	6	4	52	1.49
1367020--1367049	2	15.0	2	92	0	51	50	3	0	46	1.18
1369391--1369442	23	2.2	24	82	3	70	53	0	1	44	1.11
1369401--1369442	17	2.4	19	80	15	54	54	0	2	42	1.13
1369796--1369845	14	3.2	16	73	23	52	48	0	0	52	1.00
1371762--1371802	21	2.0	21	85	9	57	46	0	2	51	1.14
1371759--1371805	11	4.6	10	80	19	53	48	0	2	48	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1373585--1373664	39	2.1	39	92	0	133	52	12	12	22	1.72
1436996--1437029	17	2.0	17	88	0	50	41	0	5	52	1.25
1439517--1439556	19	2.0	19	85	9	53	60	0	2	37	1.11
1440190--1440231	16	2.6	16	85	7	59	50	2	2	45	1.27
1445690--1445818	49	2.6	49	86	7	170	37	11	1	49	1.49
1446130--1446342	107	2.0	106	93	0	363	33	7	16	42	1.76
1447498--1447537	21	2.0	20	85	5	53	45	0	2	52	1.14
1449336--1449415	39	2.1	39	92	0	133	52	12	12	22	1.72
1449723--1449764	22	1.9	23	85	9	61	59	0	0	40	0.97
1449717--1449764	25	2.0	23	88	8	69	58	0	0	41	0.98

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19