genome.fa.s72.2.7.7.80.10.50.1000.9.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: Scaffold72
Parameters: 2 7 7 80 10 50 1000
Length:  5928628

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   27   28   29   30   31   32   
          33   34   35   36   37   38   39   

This is table  9  of  39  ( 4596 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)
1132386--1132451	33	2.0	33	87	0	96	39	12	16	31	1.85
1134623--1134660	20	1.9	20	88	0	58	28	7	13	50	1.69
1134736--1134787	13	4.5	13	73	26	62	32	13	17	36	1.89
1134719--1134787	33	2.1	33	91	5	113	31	13	18	36	1.89
1137129--1137153	13	1.9	13	100	0	50	36	16	16	32	1.90
1137217--1137241	13	1.9	13	100	0	50	32	16	16	36	1.90
1137250--1137377	52	2.5	52	90	1	204	35	16	16	31	1.91
1140589--1140631	21	2.1	20	83	12	52	53	6	13	25	1.65
1140589--1140631	20	2.1	21	83	12	54	53	6	13	25	1.65
1144482--1144507	13	2.0	13	100	0	52	30	15	15	38	1.88
1146384--1146425	22	1.9	22	90	0	66	40	7	30	21	1.80
1147093--1147146	20	2.7	20	91	5	83	33	12	18	35	1.89
1149305--1149440	53	2.6	51	81	6	155	38	12	16	31	1.86
1149319--1149440	53	2.3	52	85	4	165	40	12	17	30	1.86
1149481--1149542	20	3.0	20	83	2	70	33	17	11	37	1.86
1149505--1149554	20	2.5	20	86	3	64	34	18	8	40	1.79
1160231--1160271	20	2.1	20	86	4	57	48	7	17	26	1.73
1165255--1165303	21	2.3	21	96	0	89	24	16	14	44	1.84
1165347--1165388	21	2.0	20	90	4	66	38	9	19	33	1.84
1165347--1165396	20	2.5	21	87	6	68	40	8	18	34	1.79
1167508--1167740	116	2.0	116	92	0	385	34	15	12	37	1.85
1172713--1172762	19	2.5	20	93	3	84	36	14	20	30	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1172751--1172775	13	1.9	13	100	0	50	32	16	16	36	1.90
1188883--1188908	13	2.0	13	100	0	52	30	15	15	38	1.88
1189893--1190068	88	2.0	88	100	0	352	27	25	9	38	1.86
1193293--1193474	52	3.5	52	98	0	346	27	18	18	35	1.94
1193483--1193507	13	1.9	13	100	0	50	36	16	16	32	1.90
1193545--1193606	13	4.3	13	74	21	61	32	17	14	35	1.90
1193550--1193626	32	2.4	33	93	2	138	32	18	14	35	1.91
1194315--1194583	49	5.6	48	78	9	273	30	18	25	25	1.98
1194316--1194594	98	2.9	95	86	5	359	31	17	25	25	1.97
1194316--1194594	92	2.9	97	84	6	347	31	17	25	25	1.97
1194637--1194943	58	5.3	58	88	3	433	20	15	31	32	1.94
1194637--1194957	115	2.8	114	77	10	339	21	15	31	32	1.94
1196391--1196560	1	170.0	1	69	0	88	1	2	12	83	0.81
1196391--1196557	7	22.7	7	77	16	144	1	2	12	83	0.82
1196393--1196517	42	3.0	43	82	15	163	0	1	14	84	0.71
1196391--1196557	44	3.6	44	84	9	185	1	2	12	83	0.82
1196385--1196557	15	11.1	15	78	15	167	1	2	13	82	0.84
1196391--1196557	26	6.5	25	73	18	114	1	2	12	83	0.82
1197636--1197676	21	2.0	21	85	9	57	39	12	9	39	1.76
1197713--1197769	21	2.8	20	81	5	69	40	15	14	29	1.87
1197757--1197893	53	2.6	53	94	1	229	37	18	16	27	1.93
1197917--1197947	10	3.1	10	90	0	53	22	29	6	41	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1197935--1197988	21	2.5	22	93	6	101	25	25	11	37	1.89
1198061--1198099	13	3.0	13	92	0	69	30	17	15	35	1.91
1198569--1198635	37	1.9	35	88	11	102	32	11	25	29	1.92
1210373--1210464	16	6.1	14	78	16	80	82	15	2	0	0.76
1210396--1210462	18	3.9	18	84	13	88	80	17	1	0	0.79
1210401--1210454	4	13.8	4	80	7	58	79	18	1	0	0.82
1210373--1210464	47	2.0	43	82	12	105	82	15	2	0	0.76
1211899--1212170	29	9.5	29	82	5	297	34	29	16	19	1.94
1211900--1212170	57	4.7	57	84	6	311	34	29	16	19	1.94
1212210--1212278	21	3.2	21	67	25	63	27	26	15	30	1.96
1212209--1212410	87	2.3	88	85	6	264	26	26	18	28	1.98
1212330--1212659	49	6.6	49	83	4	320	24	24	17	33	1.96
1212340--1212759	49	8.5	49	79	6	290	24	25	16	33	1.96
1212782--1212829	22	2.2	22	96	0	87	25	20	22	31	1.98
1212629--1212982	175	2.0	175	98	0	690	23	26	16	33	1.95
1219607--1219754	79	1.9	80	87	4	219	35	14	23	25	1.93
1219708--1219779	28	2.7	27	89	6	110	27	16	29	26	1.97
1219624--1219856	106	2.2	107	82	3	283	33	15	25	26	1.95
1219735--1220048	79	4.0	78	82	5	357	33	13	25	27	1.93
1226076--1226102	2	13.5	2	100	0	54	51	0	0	48	1.00
1232448--1232486	21	1.9	20	85	15	53	58	5	7	28	1.47
1235810--1235866	7	9.7	6	82	16	50	68	10	15	5	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1235816--1235846	7	4.6	7	96	4	55	64	12	12	9	1.50
1235816--1235862	11	3.8	13	79	20	57	65	12	14	6	1.44
1235830--1235873	22	2.0	23	86	4	63	72	9	13	4	1.24
1238450--1238501	28	1.9	27	96	4	88	80	7	5	5	1.01
1239635--1239728	41	2.2	42	79	9	102	28	15	10	44	1.80
1240092--1240258	59	2.8	59	81	4	160	19	11	17	50	1.76
1240117--1240258	59	2.4	59	83	2	169	21	11	16	50	1.76
1242397--1242422	13	2.0	13	100	0	52	46	23	15	15	1.83
1245519--1245549	16	2.0	15	93	6	53	32	0	6	61	1.21
1245946--1245981	18	1.9	18	88	5	54	66	0	0	33	0.92
1246315--1246348	17	1.9	18	88	5	52	47	0	0	52	1.00
1251761--1251825	32	2.0	32	93	0	112	30	23	16	29	1.96
1255832--1255869	3	12.7	3	100	0	76	65	0	0	34	0.93
1257775--1257819	10	4.9	9	84	10	56	2	15	0	82	0.77
1257594--1258033	227	1.9	224	81	6	526	43	11	11	33	1.77
1265074--1265675	49	12.9	49	73	13	471	30	18	25	25	1.98
1265070--1265675	150	4.3	147	74	13	425	30	18	25	25	1.98
1265321--1265568	39	5.9	39	71	15	190	27	20	26	25	1.99
1265274--1265616	87	3.9	87	93	0	569	28	20	25	25	1.99
1265447--1265675	48	4.9	47	76	13	222	30	19	25	24	1.98
1265672--1266189	34	15.9	32	75	12	396	38	12	29	19	1.88
1265843--1265895	27	2.0	27	92	0	88	30	15	32	22	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1266076--1266207	27	4.4	28	76	18	99	34	12	32	21	1.90
1266012--1266189	59	2.8	64	80	12	195	35	11	30	21	1.89
1265701--1266190	227	2.2	227	89	1	757	38	12	29	18	1.88
1266123--1266242	61	2.0	59	80	6	134	36	12	29	21	1.90
1265998--1266207	95	2.3	92	88	3	296	35	12	31	20	1.90
1266230--1266813	30	18.8	30	76	8	420	33	14	28	24	1.94
1266236--1266813	62	9.3	61	77	10	352	33	14	28	24	1.94
1266230--1266813	187	3.1	186	86	4	730	33	14	28	24	1.94
1266375--1266813	156	2.8	155	88	4	636	33	15	28	23	1.94
1270138--1270163	13	2.0	13	100	0	52	30	15	15	38	1.88
1270944--1270981	18	2.1	19	85	5	51	52	0	5	42	1.24
1274391--1274457	33	2.0	33	88	0	98	34	11	13	40	1.81
1274411--1274435	13	1.9	13	100	0	50	36	16	16	32	1.90
1274531--1274650	52	2.3	52	97	0	222	35	18	17	29	1.94
1281513--1281600	1	88.0	1	72	0	68	86	13	0	0	0.57
1281514--1281600	17	5.3	17	82	14	96	86	13	0	0	0.58
1281513--1281588	17	4.5	17	85	8	111	86	13	0	0	0.56
1281513--1281600	29	2.9	28	86	13	106	86	13	0	0	0.57
1281516--1281598	20	4.3	19	83	14	100	85	14	0	0	0.60
1282895--1283039	31	4.7	31	84	10	190	25	29	19	25	1.98
1282895--1283070	62	2.8	63	83	8	211	25	29	18	27	1.98
1282895--1283074	93	1.9	93	82	6	222	24	30	17	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1283047--1283710	34	20.4	33	73	17	472	21	34	12	31	1.91
1283047--1283685	62	9.9	62	81	11	577	21	33	13	31	1.92
1283267--1283318	27	1.9	27	88	0	77	23	38	17	21	1.93
1283047--1283690	132	5.0	128	81	10	646	21	33	13	31	1.91
1283323--1283659	63	5.1	64	77	16	311	20	34	13	32	1.91
1283521--1283690	35	4.8	35	82	9	211	20	31	11	36	1.88
1283695--1283803	32	3.4	32	87	5	168	28	36	17	17	1.93
1283326--1283708	71	5.7	70	76	15	260	20	34	12	32	1.90
1283796--1284418	49	12.7	49	86	3	792	25	26	17	30	1.97
1283796--1284427	147	4.3	147	90	3	909	25	26	17	30	1.97

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   27   28   29   30   31   32   
          33   34   35   36   37   38   39