genome.fa.s247.2.7.7.80.10.50.1000.8.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: Scaffold247
Parameters: 2 7 7 80 10 50 1000
Length:  4737410

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   

This is table  8  of  29  ( 3470 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)
966780--966849	34	2.0	36	88	5	108	31	7	11	50	1.65
972395--972466	33	2.3	31	80	9	74	33	2	2	61	1.25
972548--972610	23	2.7	24	80	11	78	44	0	0	55	0.99
973473--973550	6	13.8	6	69	17	51	38	1	0	60	1.05
973473--973532	11	5.6	11	79	16	65	38	1	0	60	1.07
973473--973532	21	2.8	21	78	16	70	38	1	0	60	1.07
973447--973529	32	2.6	33	86	5	111	39	2	0	57	1.12
976006--976061	27	2.1	27	93	0	94	35	26	7	30	1.83
976698--976733	16	2.2	17	95	5	65	30	22	0	47	1.52
978825--978870	19	2.5	19	79	13	51	58	0	0	41	0.98
978876--978932	23	2.6	21	72	17	53	56	1	0	42	1.10
978878--979151	113	2.5	108	84	10	342	54	2	1	41	1.21
979057--979132	31	2.3	32	77	6	73	55	0	1	43	1.08
979102--979164	23	2.6	25	76	14	69	61	4	0	33	1.17
979559--979887	116	2.8	115	76	15	279	43	2	2	51	1.28
980460--980654	88	2.2	90	86	4	261	43	8	14	33	1.76
980525--980799	145	1.9	145	87	3	401	44	8	14	32	1.76
980685--980886	87	2.3	88	84	1	289	42	10	14	32	1.80
980460--981002	233	2.3	235	87	4	776	43	8	15	32	1.77
980835--980943	57	1.9	57	86	0	155	41	12	16	29	1.86
981016--981389	92	4.1	90	78	9	375	42	6	16	33	1.75
982199--982312	22	4.9	22	72	16	70	37	2	2	57	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
982202--982312	47	2.4	47	80	6	118	36	2	2	57	1.27
982228--982313	22	3.8	22	75	14	75	34	2	2	60	1.22
982362--982459	23	4.3	22	75	14	99	31	2	7	59	1.36
982451--982558	31	3.4	31	73	15	105	44	1	0	53	1.11
982476--982563	31	2.8	30	81	8	113	46	1	0	52	1.08
982672--982724	18	2.9	18	81	13	63	43	1	0	54	1.11
982989--983052	27	2.4	27	78	14	71	43	1	0	54	1.09
982980--983052	26	2.8	25	76	14	67	43	1	0	54	1.08
983669--983725	17	3.4	16	83	9	69	45	3	3	47	1.37
985182--985243	18	3.4	17	70	22	54	38	3	6	51	1.44
985186--985251	19	3.4	20	72	16	75	34	3	6	56	1.40
985388--985427	16	2.5	17	88	12	66	45	0	0	55	0.99
985839--985887	25	2.0	25	84	8	64	73	4	0	22	1.00
985900--985951	27	1.9	27	84	7	70	59	0	5	34	1.21
985953--986016	14	4.2	14	73	15	56	57	1	1	39	1.17
986074--986106	17	1.9	17	100	0	66	72	0	27	0	0.85
986233--986290	25	2.3	25	85	8	73	1	24	1	72	1.03
986252--986290	13	3.3	11	83	16	51	0	17	0	82	0.68
986252--986304	25	2.1	25	85	3	70	1	22	1	73	1.03
989619--989650	11	2.9	11	100	0	64	53	0	0	46	1.00
989590--989639	19	2.7	19	78	3	66	46	0	0	54	1.00
989703--989751	17	2.9	16	79	8	53	28	0	8	63	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
992157--992218	17	3.5	17	72	21	56	64	0	0	35	0.94
994408--994441	17	2.0	18	88	11	54	8	8	0	82	0.85
997259--997304	17	2.8	16	83	9	56	43	0	0	56	0.99
998292--998335	2	22.0	2	100	0	88	50	0	0	50	1.00
1000502--1000538	15	2.5	15	95	0	65	51	2	5	40	1.39
1002005--1002045	19	2.1	20	86	4	57	43	0	2	53	1.13
1003336--1003374	21	1.9	21	89	5	62	48	0	0	51	1.00
1007019--1007043	7	3.6	7	100	0	50	12	0	88	0	0.53
1007269--1007296	13	2.2	13	100	0	56	0	14	21	64	1.29
1008617--1008658	15	3.0	14	79	10	50	61	11	2	23	1.42
1010659--1010687	2	14.5	2	100	0	58	0	48	0	51	1.00
1011017--1011069	19	2.8	19	79	20	67	56	0	0	43	0.99
1011020--1011069	11	4.0	12	74	25	50	58	0	0	42	0.98
1011180--1011209	6	5.0	6	100	0	60	66	0	0	33	0.92
1011726--1011769	16	2.6	18	76	23	51	47	0	0	52	1.00
1011728--1011770	18	2.6	17	78	14	54	46	0	0	53	1.00
1011747--1011798	11	4.5	12	81	13	56	34	0	0	65	0.93
1011718--1011795	23	3.7	21	71	25	58	38	0	0	61	0.96
1011757--1011800	16	2.7	16	80	16	54	29	0	0	70	0.88
1011758--1011811	27	2.0	27	85	7	74	31	0	0	68	0.90
1011752--1011813	24	2.5	26	79	10	76	35	0	0	64	0.94
1011708--1011823	40	2.9	39	72	8	92	37	0	0	61	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1012057--1012098	16	2.4	17	84	15	50	47	0	0	52	1.00
1012449--1012492	22	2.0	22	82	8	54	47	0	0	52	1.00
1012465--1012501	17	2.2	17	90	9	58	51	0	0	48	1.00
1013187--1013240	17	3.2	17	76	5	56	44	0	1	53	1.11
1013765--1013813	25	2.0	25	88	11	75	67	8	2	22	1.28
1015593--1015643	6	8.7	6	73	4	50	1	21	0	76	0.88
1015594--1015658	29	2.3	28	84	12	80	3	24	0	72	0.99
1019379--1019410	2	16.0	2	93	0	55	46	0	0	53	1.00
1020919--1020982	25	2.5	25	75	9	67	46	9	0	43	1.35
1026786--1026869	36	2.4	36	84	4	100	53	16	11	17	1.72
1029697--1029789	45	2.1	45	100	0	186	36	20	17	25	1.94
1034216--1034240	13	1.9	13	100	0	50	36	16	16	32	1.90
1034303--1034327	13	1.9	13	100	0	50	32	16	16	36	1.90
1034336--1034464	52	2.5	52	94	0	222	34	16	18	30	1.93
1040456--1040489	15	2.3	15	89	0	50	47	0	2	50	1.16
1040646--1040682	19	1.9	19	88	0	56	43	2	0	54	1.14
1041335--1041383	21	2.2	24	78	14	59	53	0	6	40	1.26
1041346--1041389	23	2.0	23	91	8	74	50	0	4	45	1.22
1041424--1041527	26	3.9	26	76	12	79	46	3	3	46	1.39
1041453--1041526	14	5.5	13	73	12	51	44	5	4	45	1.45
1041623--1041692	16	4.6	15	72	21	56	44	1	0	54	1.09
1041623--1041677	28	2.0	28	85	7	76	45	0	0	54	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1041741--1041783	14	3.1	14	86	0	59	46	2	6	44	1.43
1042219--1042301	29	3.1	25	77	17	85	39	0	1	59	1.05
1042271--1042310	17	2.4	17	87	8	55	42	0	0	57	0.98
1042654--1042724	13	4.8	13	71	21	52	54	1	1	42	1.17
1042642--1042759	32	3.6	32	77	9	105	56	0	2	39	1.19
1048774--1048828	22	2.5	22	82	8	58	50	0	0	49	1.00
1050259--1050300	19	2.1	21	86	8	61	47	0	2	50	1.14
1051609--1051649	3	13.7	3	100	0	82	34	0	0	65	0.93
1052049--1052082	2	17.0	2	100	0	68	50	0	0	50	1.00
1052160--1052229	23	3.0	23	74	15	70	52	1	0	45	1.09
1053694--1053811	21	5.5	21	77	9	89	40	0	1	57	1.09
1053711--1053806	11	8.3	12	69	23	64	42	0	2	55	1.11
1053685--1053772	21	4.3	21	79	13	85	43	0	1	55	1.07
1053685--1053803	61	1.9	60	81	6	139	42	0	1	55	1.09
1053780--1053835	23	2.5	23	85	8	71	30	0	1	67	1.01
1054714--1054746	11	3.0	11	86	13	50	33	0	0	66	0.92
1054971--1055012	3	14.0	3	100	0	84	33	0	0	66	0.92
1056319--1056347	15	1.9	15	100	0	58	37	0	0	62	0.96
1062424--1062457	3	11.3	3	87	0	50	67	5	0	26	1.13
1062424--1062457	12	2.8	12	95	0	59	67	5	0	26	1.13
1063676--1063706	2	15.5	2	100	0	62	51	0	0	48	1.00
1063821--1063851	2	15.5	2	93	0	53	48	0	3	48	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1064059--1064110	20	2.5	21	87	9	72	44	1	1	51	1.23
1064213--1064258	24	1.9	24	86	8	67	69	0	0	30	0.89
1065500--1065532	10	3.4	10	87	8	50	36	6	0	57	1.23
1068547--1068585	2	19.5	2	100	0	78	48	0	0	51	1.00
1069170--1069207	16	2.5	15	87	8	51	57	0	5	36	1.21
1070017--1070068	10	5.2	10	82	11	54	7	19	0	73	1.07
1072791--1072829	4	10.2	4	89	10	64	25	23	0	51	1.49
1072791--1072849	30	2.0	30	86	6	84	28	20	0	50	1.48
1075129--1075161	2	16.5	2	100	0	66	48	0	0	51	1.00
1079001--1079084	29	2.9	28	79	17	84	36	0	2	60	1.10

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