genome.fa.s127.2.7.7.80.10.50.1000.5.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: Scaffold127
Parameters: 2 7 7 80 10 50 1000
Length:  4281254

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  5  of  26  ( 3103 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)
918573--918629	11	4.5	13	77	22	59	64	0	0	35	0.93
918573--918659	36	2.5	34	81	14	97	62	0	0	37	0.96
919173--919246	37	2.0	37	97	0	139	50	10	5	33	1.60
925908--925965	22	2.6	22	72	5	55	37	3	1	56	1.26
925942--926008	20	3.5	20	75	16	63	43	0	0	56	0.99
927663--927689	2	13.5	2	100	0	54	51	0	0	48	1.00
930809--930900	32	2.8	32	81	12	100	47	0	1	51	1.07
931590--931657	29	2.4	29	80	9	86	41	0	0	58	0.98
931667--931794	69	1.9	66	80	7	150	46	1	0	51	1.10
933591--933659	36	1.9	36	85	8	97	36	0	1	62	1.04
933663--933746	28	3.1	28	72	3	82	58	0	0	41	0.98
933683--933726	14	3.1	15	77	12	56	56	0	0	43	0.99
933702--933759	23	2.6	23	83	8	66	56	0	0	43	0.99
933868--933927	22	2.9	21	81	13	70	30	0	0	70	0.88
933894--933929	16	2.2	16	90	5	54	30	0	0	69	0.89
938612--938716	55	1.9	55	98	0	201	34	17	16	32	1.92
940249--940311	9	6.9	10	67	26	50	30	0	1	68	0.99
940475--940546	27	2.6	27	71	20	67	55	2	2	38	1.29
950965--950996	12	2.7	12	95	0	55	87	0	12	0	0.54
951809--954165	598	3.9	598	95	0	4186	35	13	20	31	1.91
956715--956776	31	2.0	31	100	0	124	45	12	16	25	1.83
958640--958681	22	1.9	22	90	9	68	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)
960679--960728	14	3.3	15	80	8	57	54	0	0	46	1.00
960700--960728	14	2.1	14	100	0	58	62	0	0	37	0.96
964043--964082	19	2.2	19	90	4	64	47	5	15	32	1.66
968927--968991	26	2.6	26	83	9	82	36	0	1	61	1.05
969363--969389	13	2.1	13	100	0	54	51	0	0	48	1.00
970480--970507	2	14.0	2	100	0	56	50	0	0	50	1.00
975580--975637	30	1.9	31	82	3	73	46	0	3	50	1.18
975588--975648	31	2.0	30	83	3	77	45	0	3	50	1.17
980226--980259	12	2.8	12	90	4	50	58	0	0	41	0.98
981631--981666	3	12.0	3	100	0	72	33	0	0	66	0.92
982015--982084	5	14.2	5	77	14	56	30	0	0	70	0.88
982003--982086	14	6.1	14	78	12	75	33	0	0	66	0.92
982004--982070	17	3.5	20	76	17	63	32	0	0	67	0.91
982004--982086	40	2.1	40	81	4	96	32	0	0	67	0.91
982019--982081	12	4.8	12	74	18	54	28	0	0	71	0.86
982578--982653	28	2.8	27	79	18	79	35	0	1	63	1.03
982580--982619	12	3.1	14	75	17	50	35	0	0	65	0.93
982580--982633	26	2.1	26	86	10	76	37	0	0	62	0.95
983803--983838	18	1.9	19	88	5	56	50	0	0	50	1.00
984990--985040	24	2.1	24	82	7	59	45	0	1	52	1.12
991658--991685	2	14.0	2	100	0	56	50	0	0	50	1.00
992224--992256	15	2.2	15	94	0	57	72	0	0	27	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
992502--992547	24	1.9	24	82	8	58	47	0	2	50	1.13
992591--992630	16	2.6	15	80	7	53	40	0	0	60	0.97
992866--992899	16	2.1	16	88	0	50	8	8	8	73	1.25
993270--993310	2	20.5	2	100	0	82	0	48	0	51	1.00
994170--994194	2	12.5	2	100	0	50	52	0	0	48	1.00
994433--994487	22	2.5	22	82	5	58	45	0	0	54	0.99
995805--995855	14	3.9	13	80	17	52	52	0	1	45	1.12
1005451--1005494	20	2.3	19	88	4	61	38	2	2	56	1.24
1011579--1011653	28	2.7	27	78	11	73	38	0	1	60	1.06
1011599--1011676	23	3.2	23	77	14	77	37	1	0	61	1.04
1011588--1011669	23	3.4	24	74	14	71	36	1	1	60	1.12
1011643--1011723	30	2.7	30	86	0	126	43	4	0	51	1.23
1011715--1011754	15	2.6	16	92	7	66	55	0	0	45	0.99
1012583--1012658	23	3.4	22	75	18	77	38	0	0	61	0.96
1013473--1013597	16	7.9	16	71	10	87	48	4	2	45	1.34
1013558--1013606	16	3.1	16	91	5	73	57	2	0	40	1.10
1014467--1014509	21	2.1	20	91	4	68	46	0	0	53	1.00
1014534--1014578	16	2.5	19	75	20	60	44	0	0	55	0.99
1014544--1014578	16	2.2	16	100	0	70	42	0	0	57	0.99
1018568--1018607	20	2.0	21	90	5	64	55	0	2	42	1.13
1018585--1018654	27	2.5	28	82	15	83	51	0	0	48	1.00
1018586--1018650	16	3.9	17	72	11	55	50	0	0	49	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1018609--1018652	20	2.1	21	84	12	56	52	0	0	47	1.00
1019322--1019364	22	1.9	22	85	4	59	53	2	2	41	1.26
1019436--1019492	22	2.5	23	86	8	73	64	0	0	35	0.93
1020045--1020141	45	2.2	42	78	10	106	60	1	0	38	1.03
1021406--1021450	20	2.3	19	80	7	54	64	0	0	35	0.94
1021416--1021489	33	2.3	31	80	13	78	50	0	0	50	1.00
1021449--1021496	23	2.0	24	88	4	71	39	0	0	60	0.97
1025416--1025457	3	14.0	3	89	0	66	64	2	0	33	1.07
1030415--1030440	2	13.0	2	100	0	52	50	0	0	50	1.00
1030490--1030537	21	2.1	23	85	11	64	64	0	0	35	0.94
1030685--1030805	64	1.9	64	92	0	206	11	23	2	61	1.41
1031484--1031549	25	2.7	26	84	15	72	53	0	0	46	1.00
1031453--1031549	30	3.3	30	75	18	80	51	0	0	48	1.00
1031616--1031719	14	7.4	14	69	20	56	50	0	0	49	1.00
1031623--1031670	17	3.0	18	77	22	54	52	0	0	47	1.00
1031634--1031696	28	2.3	26	74	12	63	50	0	0	49	1.00
1032564--1032607	18	2.4	19	81	14	56	4	22	20	52	1.65
1034267--1034317	26	2.0	25	85	11	68	45	0	0	54	0.99
1035328--1035359	15	2.1	16	83	16	50	40	0	0	59	0.97
1035947--1035986	18	2.2	18	86	8	55	45	2	5	47	1.38
1036236--1036282	21	2.2	21	85	7	60	34	4	0	61	1.15
1036254--1036298	13	3.4	13	78	3	54	31	0	0	68	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1036696--1036791	43	2.3	41	77	8	102	52	0	0	47	1.00
1036844--1036889	17	2.8	16	80	9	56	58	2	0	39	1.10
1037649--1037691	15	2.9	15	77	22	54	39	0	0	60	0.97
1037634--1037691	30	2.0	29	86	3	80	43	0	0	56	0.99
1038120--1038155	18	1.9	19	94	5	65	52	0	2	44	1.15
1039004--1039029	2	13.0	2	100	0	52	50	0	0	50	1.00
1040413--1040444	2	16.0	2	93	0	55	46	0	3	50	1.17
1043316--1043353	13	2.6	14	80	19	51	78	0	0	21	0.74
1043339--1043384	18	2.5	20	75	13	53	60	8	0	30	1.26
1043855--1043890	3	12.0	3	100	0	72	0	33	0	66	0.92
1049229--1049272	20	2.2	21	88	8	65	34	0	0	65	0.93
1056118--1056189	28	2.6	28	95	0	126	27	19	20	31	1.97
1066279--1066305	2	13.5	2	100	0	54	51	48	0	0	1.00
1067652--1067695	18	2.3	20	88	7	65	68	0	0	31	0.90
1067656--1067772	19	6.8	17	72	17	82	61	0	0	37	1.02
1067710--1067768	17	3.4	18	82	15	63	54	0	0	45	0.99
1067708--1067770	18	3.6	18	70	22	62	53	0	0	46	1.00
1069063--1069094	2	16.0	2	93	0	55	46	0	3	50	1.17
1076767--1076792	1	26.0	1	100	0	52	0	100	0	0	0.00
1080715--1080786	24	3.0	24	84	11	94	47	2	0	50	1.15
1087363--1087765	203	2.0	204	94	1	709	32	19	18	30	1.96
1087932--1087962	16	1.9	16	93	0	53	3	9	3	83	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1099746--1099790	10	4.1	12	78	18	53	64	0	0	35	0.94
1102732--1102788	17	3.5	17	72	15	57	43	0	0	56	0.99
1112425--1112469	20	2.3	19	85	14	56	46	0	0	53	1.00
1112584--1112636	24	2.4	22	84	15	65	54	0	3	41	1.18
1112603--1112636	10	3.3	10	87	4	50	52	0	2	44	1.16
1113477--1113547	30	2.4	29	79	9	81	46	5	0	47	1.26
1114204--1114264	10	5.9	10	73	11	52	50	0	0	49	1.00
1114194--1114258	31	2.1	31	86	8	89	49	0	0	50	1.00
1114221--1114267	23	2.0	24	91	8	78	53	0	0	46	1.00
1114249--1114296	18	2.6	18	75	15	53	58	2	2	37	1.22

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