genome.fa.s324.2.7.7.80.10.50.1000.9.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: Scaffold324
Parameters: 2 7 7 80 10 50 1000
Length:  2336777

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

This is table  9  of  16  ( 1878 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)
1267597--1267669	18	3.8	19	74	15	71	42	0	0	57	0.98
1267865--1267905	21	2.1	19	86	9	55	36	0	4	58	1.20
1268608--1268633	1	26.0	1	100	0	52	0	0	0	100	0.00
1269224--1269286	18	3.4	19	74	12	60	50	1	0	47	1.10
1269457--1269505	14	3.4	14	78	21	57	44	0	0	55	0.99
1269451--1269563	42	3.1	34	75	22	95	41	0	0	58	0.98
1269452--1269516	19	3.5	19	76	17	57	43	0	0	56	0.99
1269483--1269542	23	2.7	24	82	7	65	43	0	0	56	0.99
1269470--1269527	10	5.5	11	73	15	52	41	0	0	58	0.98
1269494--1269558	13	4.7	13	74	18	51	43	0	0	56	0.99
1270041--1270084	23	2.0	23	95	4	81	38	20	9	31	1.84
1270377--1270444	27	2.5	28	84	15	81	60	0	0	39	0.97
1270376--1270449	28	2.8	25	77	20	78	56	0	0	43	0.99
1271654--1271678	12	2.1	12	100	0	50	32	16	20	32	1.94
1274442--1274489	21	2.1	21	85	11	60	60	2	2	35	1.20
1276569--1276623	26	2.0	27	82	6	67	60	1	3	34	1.25
1279930--1279958	14	2.0	15	93	6	51	68	20	3	6	1.27
1283950--1284020	23	3.1	23	64	11	65	25	21	30	22	1.98
1285273--1285327	25	2.2	26	78	15	62	36	5	0	58	1.21
1287245--1287338	5	19.2	5	70	14	54	60	1	0	38	1.04
1287237--1287317	16	5.0	17	69	19	57	56	0	0	43	0.99
1287245--1287340	27	3.5	27	78	14	81	60	1	0	38	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1287261--1287338	22	3.3	24	70	10	63	61	1	0	37	1.04
1292232--1292284	2	27.0	2	84	3	72	50	0	1	47	1.12
1295452--1295484	14	2.4	14	94	0	57	45	0	3	51	1.16
1296541--1296610	20	3.5	19	75	12	52	45	0	4	50	1.21
1296582--1296622	20	2.0	20	90	0	64	58	0	0	41	0.98
1296727--1296755	12	2.4	12	100	0	58	51	0	0	48	1.00
1296724--1296758	11	3.1	11	88	8	52	51	0	0	48	1.00
1297193--1297408	50	4.3	50	85	1	261	32	20	17	29	1.95
1297194--1297409	101	2.2	100	83	4	272	32	20	17	28	1.96
1304381--1304422	2	21.0	2	95	0	75	47	0	2	50	1.14
1307021--1307476	225	2.0	226	98	1	878	29	18	16	35	1.93
1309102--1309140	20	2.0	20	85	10	53	53	0	0	46	1.00
1309085--1309143	27	2.2	26	85	8	75	54	1	0	44	1.10
1309555--1309598	22	1.9	24	86	9	65	65	0	4	29	1.12
1310002--1310031	2	15.0	2	92	0	51	50	3	0	46	1.18
1311856--1311894	14	2.6	14	84	8	51	53	0	0	46	1.00
1314120--1314169	16	3.1	17	81	16	54	54	0	0	46	1.00
1314279--1314311	16	2.0	17	88	5	50	45	3	0	51	1.16
1314755--1314821	14	4.5	15	74	18	59	53	1	1	43	1.19
1316595--1316623	5	5.8	5	100	0	58	0	17	0	82	0.66
1316738--1316794	29	2.0	29	86	6	80	42	0	3	54	1.17
1316778--1316863	34	2.5	34	82	17	90	43	4	1	51	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1317406--1317447	17	2.4	18	84	15	61	42	9	0	47	1.36
1317933--1317969	2	18.5	2	100	0	74	51	0	0	48	1.00
1318715--1318758	23	1.9	23	90	0	70	52	4	0	43	1.22
1318982--1319044	2	33.5	2	78	12	62	47	6	0	46	1.28
1318979--1319047	35	2.1	32	80	17	88	43	8	0	47	1.34
1318982--1319045	18	3.6	19	78	16	75	46	6	0	46	1.27
1321075--1321108	16	2.1	16	88	0	50	52	5	0	41	1.25
1321326--1321400	34	2.1	35	92	7	125	30	18	34	16	1.93
1321636--1321678	20	2.2	20	87	4	61	46	0	0	53	1.00
1321696--1321731	17	2.0	18	89	10	56	69	0	0	30	0.89
1322093--1322123	2	15.5	2	100	0	62	48	0	0	51	1.00
1322245--1322284	20	2.0	20	90	0	62	32	2	0	65	1.06
1322251--1322297	20	2.2	21	85	7	60	36	4	0	59	1.17
1322263--1322322	32	2.0	29	87	9	84	38	3	0	58	1.15
1322681--1322712	4	8.0	4	92	0	55	78	0	21	0	0.76
1322681--1322711	16	1.9	16	100	0	62	80	0	19	0	0.71
1322997--1323050	23	2.3	24	78	15	67	24	12	1	61	1.42
1326927--1326958	2	16.0	2	100	0	64	50	0	0	50	1.00
1328394--1328418	2	12.5	2	100	0	50	0	0	48	52	1.00
1331008--1331040	14	2.5	13	90	9	50	54	0	0	45	0.99
1332354--1332383	2	15.0	2	100	0	60	50	0	0	50	1.00
1334602--1334677	36	2.1	37	85	2	100	38	3	3	53	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1338417--1338465	21	2.3	21	86	10	64	36	0	0	63	0.95
1339063--1339131	30	2.4	28	79	13	68	36	2	2	57	1.28
1339093--1339133	22	1.9	22	95	5	75	36	0	0	63	0.95
1339256--1339312	21	2.7	21	88	2	87	40	1	0	57	1.09
1340445--1340577	44	3.0	44	81	1	133	36	5	10	47	1.61
1340455--1340571	44	2.7	44	86	1	155	35	5	9	48	1.60
1340790--1340814	13	1.9	13	100	0	50	64	0	4	32	1.12
1341065--1341102	2	19.0	2	88	0	58	47	2	2	47	1.30
1342218--1342334	29	4.0	30	76	8	82	46	3	14	35	1.62
1342472--1342556	21	4.0	21	72	18	68	56	1	0	42	1.07
1342528--1342571	18	2.6	16	82	13	52	54	0	0	45	0.99
1342495--1342605	35	3.2	32	78	17	100	54	2	0	43	1.14
1343178--1343218	2	20.5	2	100	0	82	48	0	0	51	1.00
1343245--1343319	27	2.8	27	83	0	105	25	6	21	46	1.75
1343243--1343347	27	4.1	25	75	8	86	23	7	21	46	1.77
1347768--1347842	27	3.0	25	83	9	98	20	6	26	46	1.75
1348919--1349002	31	2.8	30	74	7	89	51	3	13	32	1.58
1349260--1349304	15	3.1	14	81	9	54	60	0	0	40	0.97
1349172--1349301	21	6.2	21	69	18	58	55	1	0	43	1.09
1350944--1350979	3	11.7	3	88	5	54	30	0	5	63	1.17
1352438--1352462	3	8.3	3	100	0	50	36	0	0	64	0.94
1353379--1353412	14	2.4	14	95	0	59	61	8	11	17	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1355458--1355539	2	40.0	2	82	9	94	43	1	6	48	1.35
1358069--1358124	28	2.0	28	96	0	103	37	14	8	39	1.77
1358073--1358134	28	2.2	28	88	5	90	40	12	8	38	1.73
1359929--1359966	18	2.1	18	90	0	58	36	15	5	42	1.70
1362828--1362852	13	1.9	13	100	0	50	56	12	16	16	1.68
1362763--1362929	90	1.9	90	98	0	325	34	14	13	37	1.86
1363869--1363893	13	1.9	13	100	0	50	16	8	28	48	1.74
1369732--1369992	130	2.0	130	88	0	387	32	15	15	36	1.89
1373965--1374003	2	19.5	2	100	0	78	51	0	0	48	1.00
1378949--1379190	53	4.6	53	91	2	342	25	14	30	30	1.94
1386272--1386320	11	4.6	11	73	16	50	57	2	0	40	1.10
1388630--1388660	15	2.1	14	94	5	53	38	0	0	61	0.96
1389775--1389803	12	2.3	13	94	5	51	58	0	0	41	0.98
1389795--1389871	33	2.3	33	72	16	79	45	1	1	51	1.17
1390229--1390305	37	2.0	37	82	9	93	45	0	1	53	1.08
1390473--1390516	21	2.1	21	83	8	54	45	0	0	54	0.99
1390875--1390938	22	2.9	22	73	13	60	60	0	0	39	0.97
1393197--1393230	2	17.0	2	93	0	59	50	2	0	47	1.16
1394425--1394495	19	3.9	18	76	7	63	54	1	0	43	1.08
1394934--1394963	2	15.0	2	100	0	60	50	0	0	50	1.00
1394982--1395044	30	2.1	31	82	8	76	47	0	1	50	1.10
1395089--1395117	3	9.7	3	100	0	58	68	0	0	31	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1395723--1395868	73	2.0	73	100	0	292	34	9	13	42	1.77
1397904--1397938	2	17.5	2	100	0	70	48	0	0	51	1.00
1400060--1400102	2	21.5	2	100	0	86	48	0	0	51	1.00
1401295--1401341	25	1.9	25	82	4	60	51	2	6	40	1.39
1403281--1403444	29	5.6	29	69	23	103	41	0	0	57	1.03
1403279--1403429	34	4.5	33	73	19	100	41	0	0	58	0.98
1403283--1403447	36	4.6	37	71	19	118	41	0	0	57	1.03
1403279--1403456	83	2.2	77	79	15	184	42	1	0	56	1.11
1404413--1404461	2	24.5	2	91	0	62	42	2	6	48	1.39
1404905--1404948	24	1.9	22	86	9	61	40	0	4	54	1.21

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