genome.fa.s106.2.7.7.80.10.50.1000.7.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: Scaffold106
Parameters: 2 7 7 80 10 50 1000
Length:  4928209

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   

This is table  7  of  27  ( 3135 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)
938328--938396	35	2.0	35	91	5	113	57	0	1	40	1.07
938292--938434	64	2.2	65	82	8	166	60	2	0	37	1.14
938613--938647	17	2.0	18	88	5	54	51	0	2	45	1.16
938801--938870	28	2.4	29	77	13	74	45	7	0	47	1.30
944245--944269	2	12.5	2	100	0	50	52	0	0	48	1.00
949396--949494	42	2.3	43	81	8	114	38	15	13	33	1.86
949894--949956	24	2.7	23	77	18	67	39	1	0	58	1.07
952474--952517	21	2.1	21	91	0	70	31	27	9	31	1.88
958152--958184	2	16.5	2	100	0	66	51	0	0	48	1.00
963210--963242	10	3.2	10	91	8	57	36	0	0	63	0.95
966246--966271	12	2.2	12	100	0	52	30	0	34	34	1.58
967378--967418	15	2.7	15	96	3	73	46	12	31	9	1.74
969527--969624	19	5.8	18	71	28	90	37	17	11	33	1.85
969529--969622	32	2.9	32	95	1	161	37	18	10	34	1.85
970294--970347	20	2.7	20	88	5	74	40	9	12	37	1.76
973851--973890	21	1.9	21	100	0	80	47	15	5	32	1.66
975864--975904	18	2.3	18	86	0	55	31	7	29	31	1.85
981858--981902	23	2.0	21	83	8	54	40	0	2	57	1.11
981978--982002	12	2.1	12	100	0	50	56	0	0	44	0.99
981982--982036	22	2.5	22	75	0	56	49	5	3	41	1.43
982517--982558	14	2.7	16	78	17	52	54	0	0	45	0.99
987518--987545	2	14.0	2	100	0	56	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
988235--988276	21	2.0	21	86	13	61	40	0	0	59	0.97
988604--988685	40	2.0	40	95	0	146	51	0	2	46	1.14
988623--988689	18	3.5	18	73	15	71	53	0	0	46	1.00
989600--989722	42	3.1	38	75	15	108	45	0	1	52	1.10
989632--989732	38	2.6	39	80	13	120	47	0	0	52	1.00
989609--989732	40	3.1	38	76	15	126	47	0	1	50	1.10
990009--990062	16	3.4	16	75	10	56	50	0	0	50	1.00
990695--990742	21	2.3	21	85	7	62	35	0	4	60	1.16
990751--990800	19	2.9	17	75	24	52	38	2	0	60	1.09
992653--992684	2	16.0	2	100	0	64	0	50	0	50	1.00
992827--992924	48	2.0	49	96	2	180	32	12	13	41	1.81
992905--992936	2	16.0	2	100	0	64	50	0	0	50	1.00
994901--994957	14	3.8	15	78	15	55	31	0	0	68	0.90
994909--994942	17	2.1	16	88	5	50	29	0	0	70	0.87
994910--994957	16	3.1	16	77	17	55	31	0	0	68	0.90
997882--997938	12	4.9	12	72	22	50	59	0	0	40	0.97
997834--997936	34	3.0	35	83	7	122	52	0	0	46	1.07
997887--997947	28	2.2	26	86	11	86	55	0	0	44	0.99
1003078--1003112	3	11.7	3	100	0	70	34	0	0	65	0.93
1003514--1003550	10	3.5	10	86	13	56	45	0	0	54	1.00
1003490--1003561	28	2.4	29	80	13	76	48	0	1	50	1.09
1004575--1004608	17	1.9	17	88	5	50	55	8	0	35	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1008350--1008413	6	11.2	6	75	21	66	35	0	0	64	0.94
1008350--1008513	11	15.1	11	69	23	73	38	0	1	60	1.05
1008349--1008462	27	4.4	25	74	16	99	42	0	0	57	0.98
1008363--1008462	16	6.2	16	70	24	61	42	0	0	58	0.98
1008447--1008495	21	2.4	21	82	3	64	28	0	2	69	1.00
1013509--1013617	54	2.0	54	100	0	218	42	16	17	23	1.89
1014108--1014134	6	4.5	6	100	0	54	33	0	18	48	1.49
1017109--1017164	15	3.7	15	83	7	60	44	1	3	50	1.29
1017135--1017169	16	2.2	16	100	0	70	51	0	0	48	1.00
1017200--1017276	38	2.1	38	90	2	120	46	1	3	48	1.28
1017238--1017281	13	3.1	14	83	9	54	43	0	4	52	1.22
1017234--1017278	23	2.0	23	86	0	63	42	0	4	53	1.21
1017257--1017305	15	3.2	15	74	5	53	44	2	2	51	1.24
1017234--1017284	23	2.3	22	77	9	59	45	0	3	50	1.20
1017268--1017371	48	2.2	47	82	1	127	50	4	2	41	1.38
1017296--1017378	16	5.1	17	71	12	59	54	6	2	37	1.38
1017338--1017397	17	3.6	16	79	2	57	58	5	1	35	1.30
1017622--1017665	22	2.0	22	82	8	54	61	4	2	31	1.28
1022943--1023016	36	2.1	37	82	14	93	63	0	0	36	0.95
1023777--1023808	13	2.4	14	85	15	50	0	18	0	81	0.70
1024530--1024571	17	2.6	16	82	14	50	28	19	14	38	1.90
1025320--1025358	2	19.5	2	100	0	78	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1028404--1028437	10	3.4	10	83	0	50	61	0	0	38	0.96
1028782--1028832	17	2.7	19	75	22	54	37	0	0	62	0.95
1028789--1028832	18	2.4	19	81	14	56	38	0	0	61	0.96
1030120--1030146	1	27.0	1	100	0	54	0	100	0	0	0.00
1030924--1030981	25	2.4	24	77	5	64	48	0	0	51	1.00
1030947--1031010	28	2.2	28	78	10	76	57	0	0	42	0.98
1030947--1031009	29	2.2	29	80	8	76	57	0	0	42	0.99
1030921--1031014	48	2.0	47	83	6	118	51	0	0	48	1.00
1030948--1031007	31	2.0	28	81	9	66	56	0	0	43	0.99
1030973--1031023	17	3.1	17	81	13	61	58	0	0	41	0.98
1039441--1039500	27	2.4	24	77	8	66	53	0	0	46	1.00
1039455--1039510	21	2.7	22	72	10	55	55	0	0	44	0.99
1039677--1039735	26	2.4	25	81	13	68	66	10	1	22	1.31
1039729--1039770	18	2.1	21	83	16	63	42	0	0	57	0.99
1039732--1039770	20	2.1	18	90	9	60	43	0	0	56	0.99
1047425--1047481	24	2.4	24	75	0	60	31	1	7	59	1.34
1048279--1048307	7	4.1	7	100	0	58	27	31	0	41	1.56
1048397--1048448	27	1.9	27	92	0	86	65	0	0	34	0.93
1048397--1048506	34	3.4	34	75	16	103	60	0	0	40	0.97
1048420--1048507	23	4.0	21	72	19	63	57	0	0	42	0.98
1048525--1048565	18	2.3	18	87	8	57	36	0	0	63	0.95
1048532--1048566	18	2.0	18	94	5	63	31	0	0	68	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1048623--1048688	25	2.6	25	81	18	82	56	0	3	40	1.15
1052600--1052655	28	2.0	28	85	0	76	30	10	21	37	1.87
1052899--1052930	3	10.7	3	100	0	64	34	0	0	65	0.93
1062486--1062550	25	2.6	25	85	7	78	35	6	6	52	1.51
1068508--1068548	22	1.9	22	85	5	57	39	2	0	58	1.11
1073122--1073187	29	2.3	27	78	16	71	45	0	1	53	1.09
1073299--1073351	28	1.9	27	85	11	72	43	0	0	56	0.99
1073295--1073371	28	2.8	28	78	9	70	46	0	0	53	1.00
1073454--1073497	21	2.1	21	83	8	54	56	2	0	40	1.11
1078603--1078633	2	15.5	2	100	0	62	51	0	0	48	1.00
1079619--1079678	28	2.3	25	83	13	68	45	3	0	51	1.17
1079842--1079869	12	2.3	12	100	0	56	42	0	28	28	1.56
1084466--1084654	51	3.5	51	77	13	164	34	13	33	18	1.89
1088628--1088670	21	2.0	21	82	8	52	20	6	4	67	1.33
1091272--1091301	2	15.0	2	100	0	60	50	0	0	50	1.00
1091221--1091883	319	2.1	319	87	5	957	44	4	5	45	1.47
1094735--1094769	2	18.0	2	94	5	63	51	0	0	48	1.00
1101945--1101969	13	1.9	13	100	0	50	36	8	16	40	1.77
1104242--1104284	20	2.1	20	82	4	50	41	2	0	55	1.12
1105268--1105472	108	1.9	108	82	4	252	23	15	13	47	1.80
1105271--1105500	108	2.1	108	78	7	234	24	14	14	46	1.83
1107929--1108112	92	2.0	92	98	0	359	26	22	13	38	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1110675--1110712	20	1.9	20	94	0	67	71	15	0	13	1.16
1117307--1117341	18	1.9	18	100	0	70	42	22	0	34	1.54
1118631--1118657	2	13.5	2	100	0	54	51	0	0	48	1.00
1121995--1122041	21	2.2	21	85	7	60	42	0	2	55	1.12
1122053--1122099	11	4.2	11	86	2	58	68	0	0	31	0.90
1122025--1122090	26	2.8	24	70	25	59	63	0	0	36	0.95
1124825--1124863	18	2.4	15	87	12	51	38	0	0	61	0.96
1134932--1134966	16	2.2	16	89	0	52	45	0	8	45	1.34
1137656--1137723	18	3.5	20	72	11	68	54	4	4	36	1.41
1138833--1138904	28	2.8	24	71	15	63	55	6	0	37	1.27

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