genome.fa.s49.2.7.7.80.10.50.1000.6.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: Scaffold49
Parameters: 2 7 7 80 10 50 1000
Length:  1668912

Tables:   1   2   3   4   5   6   7   8   9   

This is table  6  of  9  ( 1071 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)
956433--956501	20	3.8	20	75	25	89	34	14	11	39	1.82
956455--956513	13	5.0	13	75	23	67	32	15	13	38	1.86
956435--956638	33	6.0	33	74	14	173	29	17	14	38	1.89
956552--956638	20	4.7	20	76	21	91	27	17	14	40	1.89
956589--956619	13	2.4	13	100	0	62	29	16	16	38	1.90
958935--959002	28	2.4	27	83	9	84	26	33	11	27	1.91
959096--959214	51	2.3	51	85	2	168	32	28	9	29	1.88
959148--959447	79	3.8	78	76	10	247	29	26	12	32	1.92
965777--965823	21	2.2	21	88	0	67	42	27	2	27	1.67
965784--965825	21	2.0	21	95	0	75	33	30	2	33	1.71
970124--970233	36	3.0	36	95	1	193	22	17	13	46	1.83
972312--972430	31	3.5	31	70	22	105	28	15	11	43	1.82
972343--972402	20	3.0	20	85	2	84	31	15	13	40	1.85
972291--972447	71	2.2	71	91	1	251	29	14	11	44	1.80
972801--972861	13	5.2	13	74	22	71	39	14	14	31	1.87
972783--972881	33	3.0	33	92	2	137	41	13	14	31	1.83
972815--972883	20	3.8	20	73	25	80	40	11	13	34	1.80
972915--972975	19	3.5	19	70	25	71	36	18	11	34	1.86
973864--974103	49	5.2	49	72	15	231	37	17	21	24	1.94
973881--974143	43	5.9	44	72	15	225	34	18	22	25	1.96
973855--974148	92	3.2	92	93	0	482	36	17	22	24	1.95
974152--974658	28	17.5	31	83	6	212	19	17	31	31	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
974165--974699	87	6.2	87	88	4	685	20	16	31	31	1.95
974165--974699	144	3.7	145	90	3	823	20	16	31	31	1.95
974206--974692	202	2.4	202	94	1	827	20	16	31	31	1.95
976121--976232	1	112.0	1	67	0	53	1	6	8	83	0.89
976112--976230	11	10.7	11	74	12	73	1	5	10	82	0.90
976112--976233	8	14.8	8	75	16	72	1	5	10	81	0.91
976112--976194	31	2.6	32	78	17	93	2	1	14	81	0.85
976114--976215	35	2.9	35	77	11	102	1	3	11	82	0.89
976149--976197	19	2.6	18	84	9	62	4	2	12	81	0.91
976191--976232	18	2.3	18	88	11	68	0	14	0	85	0.59
976191--976232	19	2.3	19	87	4	68	0	14	0	85	0.59
976496--977947	728	2.0	728	98	0	2823	26	19	23	30	1.98
989117--989166	15	3.0	16	88	11	66	36	20	12	32	1.89
990684--990724	21	2.0	22	85	9	59	21	19	9	48	1.77
995453--995482	13	2.3	13	100	0	60	36	13	16	33	1.88
995430--995498	33	2.1	33	86	5	95	33	18	13	34	1.90
997084--997118	10	3.5	10	96	0	61	34	0	22	42	1.54
997505--997547	21	2.0	21	90	0	68	30	11	11	46	1.76
999156--999410	58	4.4	57	74	9	205	24	11	15	48	1.78
999242--999390	29	5.2	28	70	18	83	25	12	14	48	1.78
1000775--1000807	14	2.3	15	94	5	59	15	3	6	75	1.11
1007224--1007366	64	2.2	64	82	0	169	23	20	13	41	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1007274--1007609	32	10.7	32	66	14	130	22	20	12	44	1.85
1007397--1007547	64	2.4	65	82	6	175	21	20	13	44	1.86
1007445--1007614	63	2.7	61	81	8	182	22	22	11	42	1.86
1007723--1007787	30	2.2	30	88	0	94	18	18	15	47	1.82
1008452--1008476	13	1.9	13	100	0	50	36	16	16	32	1.90
1008432--1008501	33	2.1	33	89	0	104	34	11	14	40	1.82
1012200--1012552	166	2.1	164	80	6	390	29	11	8	49	1.69
1015209--1015283	35	2.2	35	95	2	134	25	26	21	26	1.99
1018204--1018298	29	3.3	26	72	22	75	30	9	11	48	1.71
1018179--1018304	58	2.2	59	80	9	143	30	11	11	46	1.77
1018202--1018777	58	9.9	59	76	6	345	25	9	16	47	1.77
1018226--1018791	116	4.9	116	72	8	411	25	9	16	48	1.76
1018372--1018520	29	5.2	28	72	19	110	24	8	17	49	1.73
1018392--1018543	29	5.3	28	70	20	84	23	7	19	49	1.74
1018552--1018687	59	2.3	60	81	1	148	22	13	16	47	1.82
1018552--1018687	29	4.6	28	70	17	80	22	13	16	47	1.82
1018673--1018763	29	3.2	28	69	25	73	28	5	14	51	1.64
1019906--1019972	19	3.8	19	77	22	92	37	20	14	26	1.92
1019924--1019949	13	2.0	13	100	0	52	38	15	15	30	1.88
1019906--1019968	32	2.0	32	100	0	126	36	19	15	28	1.92
1019936--1019989	19	2.7	19	85	5	72	42	18	12	25	1.86
1021570--1021603	12	2.8	12	90	0	50	41	0	35	23	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1022160--1022228	21	3.3	20	76	21	63	53	5	15	24	1.64
1022185--1022239	21	2.6	22	80	13	71	58	7	10	23	1.57
1026143--1026178	13	2.8	13	95	0	63	36	16	11	36	1.84
1026299--1026344	21	2.2	20	81	11	58	32	19	4	43	1.71
1027815--1027839	13	1.9	13	100	0	50	36	16	16	32	1.90
1027795--1027864	33	2.1	33	89	0	104	34	11	14	40	1.82
1027906--1027930	13	1.9	13	100	0	50	32	16	16	36	1.90
1027939--1028059	52	2.3	52	97	0	224	34	18	18	28	1.94
1033677--1033725	24	2.0	24	100	0	98	59	8	12	20	1.58
1037865--1037898	3	11.3	3	100	0	68	67	0	32	0	0.91
1038914--1038967	7	7.7	7	91	0	90	16	0	0	83	0.65
1039063--1039100	18	2.2	16	90	9	58	23	0	0	76	0.79
1043156--1043229	27	2.8	26	81	6	94	45	21	14	17	1.84
1043156--1043238	27	3.1	26	78	11	87	44	19	19	16	1.87
1046942--1047000	19	2.9	21	73	21	61	47	0	0	52	1.00
1047006--1047104	25	4.2	24	63	27	61	53	1	0	45	1.07
1046979--1047111	68	2.0	68	93	0	230	53	0	0	45	1.05
1047004--1047062	15	4.3	14	75	14	52	54	1	0	44	1.10
1046984--1047097	36	3.3	35	72	18	121	54	0	0	44	1.06
1047046--1047141	27	3.8	25	73	15	74	45	0	0	54	0.99
1047345--1047388	20	2.3	19	80	7	52	61	0	0	38	0.96
1047810--1047875	27	2.5	28	83	11	77	48	1	0	50	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1047818--1047905	27	3.2	28	79	12	85	43	1	0	55	1.07
1047882--1047923	18	2.4	18	77	14	52	47	0	0	52	1.00
1047801--1047907	29	4.1	25	70	22	62	47	0	0	51	1.07
1047949--1048003	25	2.2	26	83	9	69	32	0	0	67	0.91
1047984--1048020	18	2.1	18	89	0	56	43	0	0	56	0.99
1048360--1048413	23	2.3	23	71	6	56	44	1	9	44	1.46
1051679--1051708	2	15.0	2	100	0	60	50	0	0	50	1.00
1051771--1051818	25	1.9	25	91	0	78	39	6	16	37	1.74
1062869--1062916	24	2.0	24	88	4	71	45	0	12	41	1.42
1064110--1064135	13	2.0	13	100	0	52	38	15	15	30	1.88
1064091--1064155	33	2.0	33	87	6	96	41	16	13	27	1.87
1070300--1070338	13	3.0	13	96	0	69	30	17	15	35	1.91
1070459--1070504	21	2.2	20	81	11	58	32	19	4	43	1.71
1070781--1070821	20	2.0	21	85	4	57	19	41	29	9	1.83
1072790--1072844	20	2.8	19	88	5	74	41	16	12	29	1.85
1072916--1072941	13	2.0	13	100	0	52	38	15	15	30	1.88
1072897--1072961	33	2.0	33	87	6	96	41	16	13	27	1.87
1073827--1073855	14	2.0	15	93	6	51	37	0	0	62	0.96
1074409--1074475	29	2.2	31	84	10	93	40	4	0	55	1.20
1074423--1074485	29	2.2	27	79	20	74	44	4	0	50	1.23
1080610--1081015	157	2.6	157	77	8	369	35	13	22	29	1.92
1080589--1081015	79	5.4	78	75	7	337	35	13	22	29	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1080948--1081065	50	2.3	51	82	8	152	31	11	27	29	1.92
1083744--1083769	13	2.0	13	100	0	52	15	38	7	38	1.76
1085844--1085868	13	1.9	13	100	0	50	32	16	16	36	1.90
1085823--1085886	33	2.0	32	90	3	101	28	15	15	40	1.88
1087610--1087655	3	15.3	3	90	0	74	34	0	34	30	1.58
1088148--1088203	21	2.6	21	80	5	58	57	8	14	19	1.63
1092247--1092287	21	1.9	22	85	14	59	31	24	0	43	1.54
1094742--1094810	32	2.2	32	91	0	120	33	17	18	30	1.94
1094742--1094822	32	2.6	32	86	3	94	33	16	18	32	1.93
1098106--1098447	174	2.0	174	95	0	621	34	10	15	39	1.82

Tables:   1   2   3   4   5   6   7   8   9