genome.fa.s66.2.7.7.80.10.50.1000.7.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: Scaffold66
Parameters: 2 7 7 80 10 50 1000
Length:  4623749

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   

This is table  7  of  26  ( 3105 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)
1196292--1196337	24	1.9	24	86	8	67	52	0	0	47	1.00
1196256--1196371	56	2.0	59	81	11	141	54	0	0	44	1.06
1196813--1196868	2	28.0	2	100	0	112	50	0	0	50	1.00
1200145--1200172	2	14.0	2	100	0	56	50	0	0	50	1.00
1202556--1202612	25	2.4	24	78	18	73	22	0	15	61	1.34
1202860--1202902	21	2.0	21	86	0	59	55	6	6	30	1.53
1202966--1202998	2	16.5	2	100	0	66	0	0	48	51	1.00
1213935--1213964	2	15.0	2	92	0	51	46	0	3	50	1.18
1214544--1214588	18	2.5	19	82	10	60	57	0	0	42	0.98
1215915--1215995	41	2.0	41	85	0	108	37	8	20	33	1.84
1217618--1217697	29	2.7	29	77	12	92	43	0	6	50	1.27
1217849--1217882	16	2.3	14	90	10	50	38	0	0	61	0.96
1217890--1217930	19	2.2	19	86	8	57	48	0	7	43	1.30
1218057--1218098	21	2.0	21	86	4	59	61	0	0	38	0.96
1223688--1223728	2	20.5	2	100	0	82	48	0	0	51	1.00
1228717--1228754	9	4.2	9	93	0	67	0	47	0	52	1.00
1228698--1228758	15	4.3	15	74	16	58	3	49	1	45	1.28
1234057--1234087	3	10.3	3	100	0	62	32	0	0	67	0.91
1234563--1234595	17	2.1	16	88	11	50	45	0	0	54	0.99
1234908--1235068	5	32.2	5	64	18	50	57	1	0	40	1.06
1234908--1234974	17	3.9	17	71	11	57	58	0	0	41	0.98
1234953--1234994	12	3.4	12	81	12	50	61	0	0	38	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1235494--1235530	19	1.9	19	88	0	56	43	0	0	56	0.99
1236006--1236041	2	18.0	2	94	0	63	50	2	0	47	1.15
1236820--1236889	18	4.2	17	72	20	67	65	0	1	32	1.01
1236915--1236963	21	2.3	21	78	0	53	42	2	2	53	1.24
1236976--1237033	12	4.8	12	77	8	55	39	0	1	58	1.08
1237014--1237072	17	3.3	18	79	15	70	35	0	3	61	1.13
1237042--1237084	23	2.0	21	86	9	59	39	0	2	58	1.11
1237047--1237117	27	2.8	24	73	21	65	43	1	1	53	1.18
1237325--1237396	28	2.6	27	75	18	76	31	4	2	61	1.29
1239488--1239605	20	5.5	21	71	15	73	62	1	0	34	1.11
1239524--1239596	27	2.7	27	78	12	80	58	1	0	39	1.06
1240592--1240648	30	1.9	30	82	7	71	57	0	1	40	1.09
1249001--1249191	97	2.0	97	100	0	382	39	25	16	19	1.91
1256070--1256123	25	2.2	24	83	6	65	50	0	0	50	1.00
1256070--1256134	26	2.6	25	80	7	69	47	0	0	52	1.00
1265404--1265472	19	3.6	19	69	16	52	43	2	4	49	1.37
1266116--1266153	19	2.0	19	89	0	58	47	0	0	52	1.00
1266181--1266227	24	2.0	24	91	4	78	59	2	0	38	1.09
1266523--1266583	27	2.3	26	83	10	79	36	0	1	62	1.05
1266573--1266648	32	2.4	33	88	4	111	44	0	0	55	0.99
1266525--1266643	27	4.2	27	73	15	71	42	0	0	57	1.04
1266960--1267067	35	2.9	35	75	14	101	56	0	0	43	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1267272--1267372	23	4.4	24	74	20	83	51	0	0	48	1.00
1267297--1267359	21	2.9	21	79	13	65	57	0	0	42	0.99
1267407--1267445	19	2.1	19	90	4	62	43	2	0	53	1.14
1268605--1268686	10	8.5	10	74	12	64	58	2	0	39	1.11
1269287--1269338	23	2.3	23	83	6	61	57	0	1	40	1.10
1269304--1269353	23	2.2	23	82	7	57	58	4	0	38	1.17
1270550--1270614	12	5.0	14	66	17	50	64	0	0	35	0.94
1270497--1270614	51	2.3	52	86	5	170	61	1	0	37	1.07
1271224--1271307	8	9.6	9	68	18	52	58	2	0	39	1.11
1271247--1271314	33	2.1	32	83	5	82	61	0	0	38	0.96
1274384--1274671	143	2.0	143	90	0	450	27	21	11	40	1.87
1274901--1274943	21	2.0	21	100	0	86	32	4	27	34	1.78
1277829--1278099	134	2.0	134	93	1	463	31	27	15	25	1.96
1278448--1278488	21	2.0	21	85	0	55	68	12	2	17	1.31
1279298--1279328	2	15.5	2	93	0	53	51	0	0	48	1.00
1280259--1280299	21	2.0	21	90	9	66	56	0	0	43	0.99
1281139--1281179	2	20.5	2	100	0	82	51	0	0	48	1.00
1282884--1282929	19	2.5	18	83	13	58	56	2	0	41	1.11
1289818--1289875	10	5.8	10	75	20	50	36	0	5	58	1.20
1289846--1289875	9	3.2	9	90	9	51	33	0	10	56	1.32
1289875--1289934	26	2.3	27	85	2	77	41	1	0	56	1.09
1290273--1290309	18	2.0	18	94	5	65	45	0	5	48	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1290868--1290907	3	13.3	3	100	0	80	67	0	0	32	0.91
1291647--1291687	3	13.7	3	100	0	82	65	0	0	34	0.93
1292489--1292529	21	2.0	21	85	9	57	51	0	0	48	1.00
1294344--1294641	149	2.0	148	86	3	420	26	16	20	36	1.94
1296998--1297027	15	2.0	15	100	0	60	13	20	26	40	1.89
1305067--1305119	21	2.5	21	84	0	61	41	3	22	32	1.72
1305660--1305707	24	2.0	24	100	0	96	50	16	16	16	1.79
1308240--1308278	20	2.0	20	84	0	51	5	2	84	7	0.84
1308831--1308879	18	2.6	19	80	6	64	55	0	0	44	0.99
1309038--1309062	2	12.5	2	100	0	50	52	0	0	48	1.00
1314203--1314268	12	5.8	12	74	12	50	46	0	1	51	1.10
1314211--1314263	22	2.4	22	83	3	61	52	0	0	47	1.00
1317650--1317748	14	6.8	16	69	20	67	60	0	1	38	1.04
1317657--1317748	20	4.7	20	73	26	74	60	0	1	38	1.04
1317648--1317745	17	5.4	18	71	19	71	61	0	1	37	1.03
1317626--1317750	22	6.2	20	70	22	84	61	0	0	37	1.02
1317870--1317939	22	3.1	22	73	17	63	45	0	0	54	0.99
1317912--1317959	18	2.6	19	77	12	55	45	0	0	54	0.99
1333525--1333611	26	3.2	26	74	20	70	52	1	0	45	1.08
1334458--1334524	19	3.3	20	78	17	68	40	8	0	50	1.34
1334657--1334715	12	5.0	11	76	12	55	35	0	0	64	0.94
1334657--1334723	23	2.9	23	81	2	80	37	0	0	62	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1335044--1335193	29	5.1	29	70	21	91	38	0	0	61	1.01
1335094--1335196	10	10.5	10	73	12	70	39	0	0	60	0.97
1335136--1335190	11	5.3	11	81	14	55	34	0	0	65	0.93
1335039--1335196	22	7.9	22	68	21	64	37	0	0	61	1.01
1335425--1335547	16	7.8	16	71	17	69	56	0	0	43	0.99
1335483--1335531	18	2.5	21	81	18	61	53	0	0	46	1.00
1335414--1335556	71	2.0	69	80	17	154	54	0	0	44	1.05
1341264--1341308	2	22.5	2	81	0	54	44	0	8	46	1.34
1341264--1341308	10	4.5	10	91	0	72	44	0	8	46	1.34
1349846--1349889	2	22.5	2	95	4	81	0	50	0	50	1.00
1350443--1350503	24	2.5	24	77	15	63	32	4	1	60	1.28
1350854--1350905	14	3.6	14	82	5	68	61	0	1	36	1.07
1351680--1351728	18	2.5	19	83	9	55	32	0	10	57	1.32
1351778--1351817	19	2.1	19	86	9	55	45	0	0	55	0.99
1351767--1351817	18	2.8	20	77	16	58	47	0	0	52	1.00
1352454--1352479	3	8.7	3	100	0	52	30	0	0	69	0.89
1352809--1352850	19	2.2	19	87	8	59	54	0	0	45	0.99
1353742--1353777	2	18.0	2	94	0	63	50	2	0	47	1.15
1354368--1354393	2	13.0	2	100	0	52	50	0	0	50	1.00
1355395--1355458	27	2.3	29	81	8	87	46	0	0	53	1.00
1355395--1355461	28	2.4	27	85	5	89	49	0	0	50	1.00
1360452--1360493	17	2.5	17	80	7	50	30	0	4	64	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1361463--1361506	23	2.0	23	91	8	74	52	2	0	45	1.13
1374255--1374337	23	3.5	22	71	20	53	39	0	0	60	0.97
1374273--1374326	21	2.8	20	75	8	58	40	0	0	59	0.98
1374288--1374335	22	2.2	22	88	7	71	35	0	0	64	0.94
1377557--1377595	16	2.5	15	87	4	51	66	5	0	28	1.12
1377878--1377924	18	2.6	18	80	6	51	61	0	0	38	0.96
1378030--1378074	15	2.8	17	80	16	60	60	0	0	40	0.97
1378270--1378306	2	18.5	2	100	0	74	51	0	0	48	1.00
1385371--1385431	23	2.7	22	79	2	68	32	1	14	50	1.53
1385553--1385590	14	2.6	14	88	12	51	55	5	0	39	1.23

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26