genome.fa.s112.2.7.7.80.10.50.1000.9.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: Scaffold112
Parameters: 2 7 7 80 10 50 1000
Length:  1714866

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

This is table  9  of  11  ( 1240 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)
1206172--1206210	2	20.0	2	84	5	53	43	0	0	56	0.99
1209982--1210119	26	5.5	24	67	20	70	59	0	0	39	1.03
1209975--1210121	8	18.6	8	67	21	62	59	0	0	39	1.02
1211031--1211059	2	15.0	2	92	7	51	48	0	0	51	1.00
1211213--1211259	15	3.3	15	79	8	62	48	0	4	46	1.21
1216029--1216062	7	4.9	7	92	0	50	79	0	0	20	0.73
1217670--1217747	27	2.9	27	83	9	88	41	0	1	57	1.07
1217648--1217759	28	3.9	28	77	13	104	41	0	1	56	1.10
1217706--1217754	15	3.3	16	70	18	52	40	0	0	59	0.98
1217734--1217786	17	3.2	16	79	10	54	49	0	0	50	1.00
1217709--1217768	28	2.1	28	84	6	77	46	0	0	53	1.00
1218070--1218099	15	2.1	15	93	6	53	33	0	0	66	0.92
1226562--1227123	279	2.0	279	96	0	1036	32	10	18	38	1.85
1230203--1230257	7	7.7	7	76	17	51	67	1	0	30	1.01
1230208--1230257	15	2.9	16	82	17	57	70	2	0	28	0.99
1230206--1230258	20	2.7	20	84	0	61	67	1	0	30	1.01
1231874--1231908	12	3.0	12	87	4	54	28	0	0	71	0.86
1231875--1231910	11	3.2	11	88	4	54	30	0	0	69	0.89
1231869--1231926	23	2.5	22	78	13	64	29	5	0	65	1.14
1231872--1231926	24	2.4	22	82	11	65	29	3	0	67	1.08
1232625--1232700	21	3.5	22	73	8	77	57	1	2	38	1.21
1239740--1239765	13	2.0	13	100	0	52	0	7	46	46	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1240025--1240058	5	6.8	5	87	12	52	17	0	0	82	0.67
1245351--1245381	2	15.5	2	100	0	62	0	51	0	48	1.00
1246713--1246755	21	2.1	21	83	12	54	58	0	0	41	0.98
1246859--1246988	11	12.4	11	66	19	55	36	0	1	60	1.11
1246915--1246967	16	3.5	15	79	20	65	41	1	0	56	1.10
1247587--1247616	10	2.8	11	90	10	53	73	0	0	26	0.84
1247581--1247634	23	2.3	26	76	23	66	72	0	0	27	0.85
1247580--1247628	7	6.9	7	79	11	55	73	0	0	26	0.83
1247797--1247825	13	2.2	13	100	0	58	58	0	13	27	1.36
1247827--1247972	34	4.3	34	80	3	150	44	25	4	25	1.73
1247827--1247972	68	2.1	68	86	2	195	44	25	4	25	1.73
1247948--1247994	22	2.1	22	88	0	67	51	27	6	14	1.67
1251943--1252003	18	3.3	18	80	8	70	34	14	19	31	1.92
1251943--1252004	19	3.4	18	84	4	72	33	14	19	32	1.92
1252302--1252450	34	4.4	34	72	6	106	45	23	4	26	1.70
1252302--1252455	68	2.3	67	85	1	191	46	23	3	26	1.70
1256311--1256367	19	3.1	19	84	2	71	64	0	1	33	1.04
1259981--1260034	22	2.4	23	78	9	58	64	1	0	33	1.04
1260938--1261005	25	2.7	25	82	8	68	35	0	2	61	1.11
1261775--1261816	20	2.1	20	86	0	57	42	2	4	50	1.36
1263234--1263521	32	9.0	32	74	7	190	34	19	20	26	1.96
1263337--1263521	96	1.9	96	82	8	234	36	18	17	27	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1263559--1263754	35	5.4	35	79	12	216	37	22	17	22	1.94
1263559--1263856	75	4.0	74	86	6	352	37	20	18	22	1.94
1263571--1263856	40	7.5	40	77	10	296	38	19	19	23	1.94
1264525--1264732	104	2.0	104	98	0	398	46	11	11	31	1.74
1264671--1264819	76	2.0	76	97	0	280	55	7	10	27	1.60
1277164--1277193	12	2.6	12	94	5	53	66	10	0	23	1.21
1289872--1289919	25	1.9	25	100	0	96	54	29	4	12	1.56
1291556--1291636	28	2.8	28	79	3	90	53	2	0	44	1.14
1292286--1292345	23	2.5	24	78	13	61	50	0	1	48	1.11
1292299--1292377	25	3.2	25	77	7	74	51	1	0	46	1.08
1292386--1292431	10	4.8	10	78	10	51	32	0	0	67	0.91
1292386--1292425	20	2.1	18	90	9	62	35	0	0	65	0.93
1292386--1292416	5	6.2	5	92	0	53	38	0	0	61	0.96
1292695--1292781	29	3.1	28	74	11	79	58	0	0	41	0.98
1296411--1296577	83	2.0	83	91	1	273	40	5	13	40	1.68
1297072--1297098	2	13.5	2	100	0	54	48	0	0	51	1.00
1299100--1299138	15	2.6	15	87	0	60	51	2	0	46	1.14
1299340--1299370	2	15.5	2	100	0	62	48	0	0	51	1.00
1299534--1299570	3	12.3	3	100	0	74	35	0	0	64	0.94
1306181--1306231	19	2.7	20	78	9	61	56	0	0	43	0.99
1306179--1306250	34	2.1	36	82	10	89	61	1	0	37	1.05
1306203--1306262	25	2.4	25	81	10	70	58	1	0	40	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1308343--1308427	43	2.0	42	90	2	134	24	17	15	42	1.88
1308930--1308961	13	2.5	13	94	0	55	59	0	0	40	0.97
1323889--1323959	35	2.0	36	91	2	117	42	11	23	22	1.86
1324547--1324580	17	2.1	17	88	5	52	41	11	17	29	1.85
1328713--1328739	2	13.5	2	100	0	54	51	0	0	48	1.00
1329258--1329341	24	3.4	25	71	14	75	47	1	1	50	1.16
1329258--1329368	17	6.7	18	67	20	55	45	0	0	53	1.13
1330337--1330376	2	20.0	2	94	0	71	50	2	0	47	1.14
1330975--1331011	2	18.5	2	100	0	74	48	0	0	51	1.00
1336271--1336318	20	2.6	17	78	18	51	56	8	27	8	1.57
1340064--1340088	13	1.9	13	100	0	50	36	16	16	32	1.90
1340046--1340107	19	3.6	18	73	26	62	35	12	16	35	1.87
1340046--1340109	32	2.0	33	93	3	112	35	12	15	35	1.85
1340150--1340174	13	1.9	13	100	0	50	32	16	16	36	1.90
1340183--1340311	52	2.5	52	96	0	240	34	18	19	27	1.95
1344209--1344261	14	3.7	14	73	11	54	60	0	0	39	0.97
1346677--1346725	21	2.3	21	86	10	64	44	0	0	55	0.99
1359997--1360024	2	14.0	2	100	0	56	50	0	0	50	1.00
1360582--1360621	2	20.0	2	100	0	80	50	0	0	50	1.00
1360801--1360831	5	6.0	5	92	7	53	0	22	0	77	0.77
1362207--1362253	13	3.5	13	80	8	51	44	0	0	55	0.99
1362207--1362261	27	2.0	28	82	10	69	45	1	0	52	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1363297--1363339	22	2.0	21	90	4	68	46	0	0	53	1.00
1363482--1363510	10	3.0	10	95	5	51	37	0	0	62	0.96
1364836--1364864	2	14.5	2	100	0	58	48	0	0	51	1.00
1365460--1365524	28	2.3	30	74	15	75	55	0	0	44	0.99
1365468--1365524	28	2.1	27	87	6	80	52	0	0	47	1.00
1365783--1365848	22	3.1	22	75	18	68	57	0	0	42	0.98
1365820--1365891	33	2.3	31	85	4	90	58	0	0	41	0.98
1369411--1369447	19	1.9	19	89	10	58	40	0	0	59	0.97
1370229--1370270	22	1.9	22	85	9	59	45	0	2	52	1.13
1370925--1371007	16	5.3	16	72	16	50	55	0	3	40	1.17
1370970--1371008	16	2.4	16	86	0	51	56	0	0	43	0.99
1371607--1371664	2	29.5	2	78	3	64	46	6	1	44	1.40
1373728--1373755	2	14.0	2	100	0	56	50	0	0	50	1.00
1376621--1376652	3	10.7	3	100	0	64	65	0	0	34	0.93
1377192--1377220	2	14.5	2	100	0	58	0	48	0	51	1.00
1377896--1377961	27	2.4	27	100	0	132	25	33	24	16	1.96
1386456--1386490	2	17.5	2	100	0	70	51	0	0	48	1.00
1386518--1386574	19	2.9	21	72	17	68	47	0	0	52	1.00
1386513--1386585	25	3.2	24	68	29	61	45	0	0	54	0.99
1393686--1393721	2	18.5	2	88	5	56	47	2	0	50	1.15
1393685--1393719	17	2.1	17	94	0	61	45	2	0	51	1.16
1397870--1397894	3	8.3	3	100	0	50	68	0	0	32	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1398168--1398204	18	2.0	18	89	5	56	72	2	2	21	1.09
1398386--1398410	2	12.5	2	100	0	50	48	0	0	52	1.00
1398480--1398532	25	2.0	27	85	7	74	47	0	1	50	1.12
1398503--1398563	31	2.0	31	87	6	88	50	0	0	49	1.00
1400122--1400268	21	7.1	21	68	19	87	62	0	0	36	1.00
1400122--1400224	10	10.2	10	68	19	63	63	0	0	35	1.01
1400122--1400268	42	3.7	40	74	13	115	62	0	0	36	1.00
1400440--1400476	2	19.0	2	94	5	67	48	0	0	51	1.00
1401004--1401043	2	20.0	2	84	0	53	42	0	5	52	1.23
1401004--1401043	12	3.3	12	92	0	62	42	0	5	52	1.23

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