genome.fa.s196.2.7.7.80.10.50.1000.7.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: Scaffold196
Parameters: 2 7 7 80 10 50 1000
Length:  7488280

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   40   41   42   43   44   45   46   47   

This is table  7  of  47  ( 5587 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)
854254--854314	19	3.2	18	74	19	61	45	0	0	54	1.00
854573--854637	23	2.9	21	78	13	67	44	0	0	55	0.99
854586--854620	18	1.9	18	88	11	54	42	0	0	57	0.99
854939--854985	4	11.5	4	82	13	51	29	0	0	70	0.88
855922--855993	32	2.2	33	85	7	94	40	0	2	56	1.13
855921--855988	28	2.3	31	80	14	81	41	0	2	55	1.15
857221--857246	3	8.7	3	100	0	52	34	0	0	65	0.93
859608--859645	20	2.0	20	89	5	60	47	0	5	47	1.24
867801--867829	2	14.5	2	100	0	58	51	0	0	48	1.00
873928--873966	2	19.5	2	100	0	78	51	0	0	48	1.00
874397--874444	20	2.6	19	78	12	55	39	2	10	47	1.49
886075--886131	18	3.4	18	68	26	61	21	7	15	56	1.63
886062--886154	32	2.9	32	100	0	186	19	9	15	55	1.66
891928--891980	27	2.0	27	96	0	97	39	3	5	50	1.44
899014--899062	21	2.3	22	78	3	55	51	2	2	44	1.24
899137--899194	26	2.2	27	84	3	82	58	5	5	31	1.42
899137--899201	26	2.5	26	79	2	76	56	4	4	33	1.40
899577--899608	16	1.9	17	93	6	57	25	0	0	75	0.81
900012--900069	22	2.6	22	83	5	73	39	3	10	46	1.55
900130--900163	16	2.2	16	89	5	52	55	11	0	32	1.36
901467--901518	25	2.0	27	85	14	74	44	0	0	55	0.99
901509--901562	21	2.4	23	82	14	69	53	1	0	44	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
904522--904549	2	14.0	2	100	0	56	50	0	0	50	1.00
904738--904775	20	1.9	20	84	10	51	55	2	0	42	1.14
909605--909653	23	2.1	24	88	3	73	61	0	0	38	0.96
909603--909651	18	2.8	18	76	14	57	61	0	0	38	0.96
909603--909659	19	3.2	18	76	21	57	57	0	1	40	1.09
910694--910739	22	2.1	22	84	11	60	58	0	0	41	0.98
917656--917680	3	8.3	3	100	0	50	68	0	0	32	0.90
922358--922385	2	14.0	2	100	0	56	50	0	0	50	1.00
925236--925295	32	2.0	30	84	12	79	43	0	0	56	0.99
926713--926779	34	2.0	34	82	8	84	53	2	0	43	1.16
926745--926798	28	1.9	28	85	14	76	62	0	0	37	0.95
926890--926929	22	1.9	22	85	10	57	37	0	0	62	0.95
927365--927456	19	5.3	19	79	12	101	68	1	1	29	1.03
927362--927443	11	7.6	11	68	18	57	68	1	1	29	1.05
927717--927790	28	2.7	26	81	6	85	43	0	1	55	1.08
927996--928055	21	3.0	21	76	16	63	58	0	0	41	0.98
931436--931493	21	2.6	23	84	15	77	50	1	5	43	1.35
931435--931492	23	2.6	22	78	15	66	48	1	5	44	1.35
936630--936667	19	2.0	19	90	10	60	68	2	28	0	1.03
939160--939204	17	2.6	16	80	13	54	40	0	0	60	0.97
939219--939259	20	2.0	21	85	9	57	31	2	0	65	1.05
939787--939817	13	2.4	13	94	0	53	54	3	0	41	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
941582--941617	9	3.8	9	92	7	54	0	27	0	72	0.85
942840--942868	3	9.7	3	100	0	58	31	0	0	68	0.89
944484--944512	2	14.5	2	100	0	58	51	0	48	0	1.00
947307--947367	30	2.0	30	81	6	70	22	14	19	42	1.88
950839--950873	14	2.5	15	90	9	56	31	2	0	65	1.07
952062--952088	3	9.0	3	100	0	54	33	0	0	66	0.92
952331--952375	10	4.6	10	81	15	58	77	0	0	22	0.76
952331--952374	20	2.2	20	88	11	65	77	0	0	22	0.77
952355--952469	43	2.7	44	75	17	111	61	0	0	36	1.08
952389--952430	17	2.4	18	88	4	59	57	0	0	42	0.99
953192--953229	20	2.0	20	84	5	51	39	2	2	55	1.28
955106--955139	2	17.0	2	100	0	68	50	0	0	50	1.00
955636--955677	22	2.0	21	86	13	59	45	2	0	52	1.13
955636--955677	21	2.0	22	86	13	61	45	2	0	52	1.13
956567--956628	30	2.1	30	87	0	88	35	6	6	51	1.53
961369--961409	14	2.9	14	81	3	55	41	0	0	58	0.98
961986--962028	17	2.5	17	84	0	50	27	2	0	69	1.00
962098--962124	14	1.9	14	100	0	54	29	0	3	66	1.09
963010--963048	2	19.5	2	100	0	78	48	0	0	51	1.00
967347--967383	15	2.4	16	90	4	58	48	0	0	51	1.00
974985--975016	2	16.0	2	100	0	64	50	50	0	0	1.00
976669--976701	17	1.9	17	100	0	66	60	21	6	12	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
977208--977244	2	19.0	2	94	5	67	51	0	0	48	1.00
978615--978648	12	2.9	11	91	8	50	64	0	2	32	1.08
978946--979012	17	3.7	18	79	15	66	35	0	0	64	0.94
980842--980879	16	2.4	16	90	0	58	42	0	2	55	1.14
980850--980884	16	2.2	16	89	0	52	42	0	2	54	1.15
984159--984336	89	2.0	88	98	1	347	36	11	8	43	1.72
986014--986234	34	6.5	33	78	9	230	41	24	7	26	1.81
986016--986234	68	3.2	68	83	1	271	41	24	7	26	1.81
986009--986234	102	2.2	101	84	1	308	42	24	7	25	1.80
990641--990858	34	6.4	34	81	7	232	42	25	6	25	1.80
990641--990858	68	3.2	67	83	2	265	42	25	6	25	1.80
990640--990858	102	2.2	101	84	1	303	42	25	6	25	1.80
994192--994235	23	1.9	23	85	0	61	54	2	0	43	1.12
994465--994493	14	2.1	14	93	6	51	24	6	3	65	1.33
996310--996360	23	2.3	22	86	6	75	41	0	3	54	1.19
996596--996639	18	2.5	17	85	7	52	18	9	0	72	1.10
1000901--1000931	10	3.1	10	100	0	62	58	0	0	41	0.98
1000994--1001031	16	2.3	17	90	4	60	57	0	42	0	0.98
1001268--1001311	18	2.5	17	85	3	52	0	45	0	54	0.99
1001383--1001448	28	2.4	28	75	14	75	1	43	3	51	1.26
1001608--1001671	8	7.8	8	75	14	51	20	1	4	73	1.09
1001608--1001672	25	2.6	24	80	17	78	21	1	4	72	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1001623--1001731	29	3.9	27	73	24	77	26	1	3	67	1.17
1001597--1001680	43	1.9	44	80	7	100	25	2	4	67	1.22
1001639--1001743	9	11.4	9	67	15	54	27	0	2	68	1.10
1006724--1006753	2	15.0	2	100	0	60	50	0	0	50	1.00
1006897--1006921	12	2.1	12	100	0	50	32	8	36	24	1.84
1007044--1007088	2	22.5	2	100	0	90	51	0	0	48	1.00
1009502--1009531	15	2.0	15	93	0	51	36	0	0	63	0.95
1012112--1012217	9	11.2	9	69	27	53	45	0	0	53	1.06
1012111--1012176	13	4.9	14	78	21	70	48	0	1	50	1.10
1012089--1012175	38	2.2	40	85	10	115	47	2	3	47	1.32
1012153--1012226	6	12.8	6	74	18	68	40	0	0	59	0.97
1012153--1012229	29	2.7	28	78	9	84	41	0	0	58	0.98
1015837--1015869	16	2.1	16	94	0	57	15	33	18	33	1.92
1024054--1024101	24	2.1	24	85	14	66	35	0	0	64	0.94
1024044--1024105	17	3.8	17	76	20	60	37	0	0	62	0.95
1024053--1024102	23	2.2	21	80	19	57	38	0	0	62	0.96
1024077--1024115	17	2.3	16	83	12	51	38	0	0	61	0.96
1024598--1024642	20	2.2	20	84	4	54	33	6	2	57	1.37
1025601--1025636	15	2.4	15	90	0	54	36	0	0	63	0.94
1025768--1025838	34	2.1	34	86	0	97	53	8	1	36	1.40
1026826--1026860	3	11.7	3	93	0	61	65	2	0	31	1.07
1031523--1031571	22	2.3	21	79	10	55	63	0	0	36	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1032017--1032115	37	2.8	34	79	8	108	28	4	28	39	1.75
1036927--1037112	79	2.4	79	77	7	191	34	13	24	26	1.93
1037044--1037163	51	2.4	51	84	8	163	35	15	21	27	1.93
1036991--1037502	130	3.9	130	82	2	580	35	14	23	27	1.93
1037309--1037423	51	2.3	51	80	3	142	35	16	20	26	1.94
1036967--1037499	260	2.0	260	83	2	651	34	13	23	28	1.93
1037392--1037641	79	3.2	80	79	1	254	37	13	22	27	1.91
1042296--1042438	51	2.8	51	87	4	198	30	16	18	34	1.94
1042427--1042451	13	1.9	13	100	0	50	36	16	16	32	1.90
1042515--1042539	13	1.9	13	100	0	50	32	16	16	36	1.90

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   40   41   42   43   44   45   46   47