genome.fa.s103.2.7.7.80.10.50.1000.10.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: Scaffold103
Parameters: 2 7 7 80 10 50 1000
Length:  2633873

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  10  of  21  ( 2458 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)
986005--986050	12	3.8	13	83	11	53	58	0	0	41	0.98
986361--986389	2	14.5	2	100	0	58	51	0	0	48	1.00
986710--986749	5	7.8	5	84	15	55	60	0	0	40	0.97
987879--987931	22	2.4	22	83	0	70	41	0	0	58	0.98
988371--988416	24	1.9	24	86	0	65	41	2	0	56	1.11
988434--988467	12	2.7	13	81	9	52	47	0	0	52	1.00
988504--988553	22	2.4	19	81	15	55	54	0	0	46	1.00
989327--989396	28	2.4	30	77	13	74	50	1	0	48	1.09
989551--989580	15	1.9	16	93	6	53	53	0	0	46	1.00
990233--990275	18	2.3	18	80	8	50	39	0	0	60	0.97
991248--991289	20	2.1	20	91	8	68	47	0	2	50	1.14
992475--992583	33	3.1	34	77	14	105	62	0	2	33	1.16
996404--996444	3	14.0	3	89	5	66	34	0	2	63	1.08
998335--998369	15	2.3	15	90	0	52	22	17	8	51	1.72
999825--999864	21	1.9	21	94	0	71	47	0	10	42	1.37
1000900--1000932	10	3.3	10	84	16	50	57	3	0	39	1.14
1001671--1001714	20	2.3	19	88	4	61	40	0	6	52	1.28
1002667--1002727	23	2.6	22	77	12	59	31	0	0	68	0.89
1002972--1003050	16	4.6	16	70	13	59	34	0	1	64	1.02
1003459--1003644	97	1.9	97	82	2	228	40	5	3	49	1.45
1003705--1003737	15	2.2	15	94	0	57	54	0	0	45	0.99
1006211--1006606	150	2.6	153	79	5	440	36	8	10	43	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1006647--1007427	153	5.2	152	76	10	531	39	7	12	40	1.72
1006623--1007284	292	2.2	296	78	9	655	39	7	12	40	1.72
1007070--1007427	156	2.3	152	80	9	399	41	7	11	39	1.70
1011071--1011147	20	3.8	20	77	6	75	37	9	12	40	1.76
1011021--1011189	91	1.9	90	89	1	266	41	9	15	33	1.80
1015328--1015402	20	3.8	20	80	3	80	40	12	13	34	1.81
1015325--1015402	40	2.0	39	87	2	111	39	12	12	34	1.82
1015930--1016534	32	18.9	32	95	0	1021	15	17	35	31	1.91
1015930--1017049	64	17.7	64	93	2	1877	15	17	35	31	1.91
1015930--1017049	96	11.8	96	93	2	1877	15	17	35	31	1.91
1016516--1016554	20	2.0	20	94	0	69	15	23	30	30	1.95
1016536--1017049	32	16.1	32	96	0	929	14	18	35	31	1.91
1018268--1018300	12	2.5	14	90	9	52	3	3	9	84	0.82
1032660--1032736	20	3.8	20	77	6	75	37	9	12	40	1.76
1032610--1032778	91	1.9	90	89	1	266	41	9	15	33	1.80
1036917--1036991	20	3.8	20	80	3	80	40	12	13	34	1.81
1036914--1036991	40	2.0	39	87	2	111	39	12	12	34	1.82
1037524--1037567	17	2.3	20	85	14	58	38	0	0	61	0.96
1037549--1037590	21	2.0	20	86	13	59	47	0	0	52	1.00
1037784--1037848	28	2.2	30	86	5	89	30	1	1	66	1.10
1037830--1037887	16	3.6	16	79	4	62	48	0	1	50	1.11
1038018--1038060	17	2.5	17	76	0	50	41	0	11	46	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1041837--1041972	68	2.0	68	85	4	186	21	9	21	47	1.78
1044871--1044901	16	1.9	16	93	0	53	58	9	3	29	1.46
1051334--1051396	26	2.4	26	78	0	72	42	6	36	14	1.71
1051448--1051491	22	2.0	22	82	4	54	43	25	9	22	1.82
1054582--1054648	37	1.9	35	88	11	102	29	25	11	32	1.92
1055106--1055131	13	2.0	13	100	0	52	30	15	15	38	1.88
1055170--1055245	21	3.7	21	78	3	100	28	19	10	40	1.85
1055190--1055263	20	3.7	20	78	3	94	31	21	12	35	1.90
1055173--1055263	41	2.2	41	98	0	173	29	20	10	38	1.87
1057181--1057205	13	1.9	13	100	0	50	32	16	16	36	1.90
1058707--1058871	84	2.0	84	82	7	201	25	19	3	51	1.63
1060397--1060463	37	1.9	35	88	11	102	29	25	11	32	1.92
1060921--1060946	13	2.0	13	100	0	52	30	15	15	38	1.88
1060985--1061060	21	3.7	21	78	3	100	28	19	10	40	1.85
1061005--1061078	20	3.7	20	78	3	94	31	21	12	35	1.90
1060988--1061078	41	2.2	41	98	0	173	29	20	10	38	1.87
1064717--1064758	2	21.0	2	100	0	84	50	0	0	50	1.00
1064939--1064985	25	1.9	24	86	4	67	46	2	2	48	1.25
1066543--1066792	139	1.8	137	88	6	373	48	8	10	33	1.67
1066873--1066915	20	2.2	20	87	4	61	27	0	2	69	1.00
1067791--1067829	20	2.0	20	84	0	51	51	2	0	46	1.14
1068762--1068983	118	1.9	117	81	4	268	42	16	4	37	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1072584--1072634	22	2.5	21	78	12	61	33	0	0	66	0.92
1073391--1073440	26	1.9	25	84	8	64	26	0	4	70	1.05
1073401--1073439	20	2.0	20	89	0	60	20	0	5	74	1.01
1074151--1074184	16	2.1	16	88	0	50	26	0	2	70	1.01
1074634--1074672	19	2.1	18	90	4	60	41	0	0	58	0.98
1076300--1076342	17	2.5	17	88	3	68	58	0	0	41	0.98
1083770--1083874	52	2.0	52	94	0	183	28	13	8	49	1.71
1099280--1099323	21	2.1	21	87	8	63	40	0	0	59	0.98
1099995--1100065	20	3.5	20	76	5	63	52	8	1	38	1.41
1103839--1103863	2	12.5	2	100	0	50	48	0	0	52	1.00
1113392--1113430	6	6.5	6	100	0	78	51	15	0	33	1.44
1113822--1113858	18	2.0	19	89	5	58	70	0	0	29	0.88
1114355--1114388	16	2.1	16	89	10	52	50	0	0	50	1.00
1114520--1114560	16	2.4	16	88	8	55	70	0	2	26	0.99
1114529--1114561	16	2.0	17	94	5	59	66	0	0	33	0.92
1116572--1116615	23	1.9	23	86	9	63	65	0	2	31	1.05
1122662--1122763	30	3.5	30	84	8	129	56	0	2	39	1.21
1122685--1122782	29	3.4	28	78	9	92	55	0	2	42	1.11
1123100--1123129	2	15.0	2	100	0	60	50	0	0	50	1.00
1124063--1124102	21	2.0	20	85	5	53	67	5	2	25	1.23
1125538--1125599	19	3.2	19	78	15	65	12	16	6	64	1.47
1127237--1127316	10	7.5	11	71	18	53	63	3	3	28	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1127237--1127322	31	2.8	29	80	15	84	65	3	3	27	1.25
1127240--1127323	21	4.0	21	73	14	66	63	4	3	28	1.32
1127590--1127640	24	2.2	23	86	10	68	43	3	0	52	1.19
1127550--1127664	54	2.1	55	83	3	144	44	6	0	48	1.29
1127656--1127699	18	2.5	18	85	10	56	56	0	0	43	0.99
1127657--1127716	18	3.4	18	80	11	54	55	0	1	43	1.10
1127691--1127774	29	3.0	28	77	19	86	58	0	4	36	1.19
1128251--1128312	18	3.0	20	79	15	65	59	1	0	38	1.07
1129711--1129771	6	9.3	7	78	10	51	42	1	0	55	1.09
1129683--1129759	15	4.4	17	76	18	61	44	0	1	54	1.08
1130554--1130586	13	2.5	13	95	0	57	30	0	36	33	1.58
1132794--1132821	2	14.0	2	100	0	56	50	0	0	50	1.00
1133098--1133156	27	2.3	24	80	13	64	57	0	5	37	1.21
1133132--1133186	19	2.8	19	72	22	51	52	0	1	45	1.11
1133151--1133221	16	4.4	16	79	13	67	56	0	0	43	0.99
1133169--1133233	32	2.0	32	91	5	105	56	0	0	43	0.99
1133170--1133237	16	4.2	17	78	17	74	58	0	0	41	0.98
1134002--1134189	100	1.9	94	84	6	241	29	15	28	26	1.96
1134678--1134894	34	6.4	34	82	2	249	26	7	25	41	1.81
1134678--1134894	102	2.1	101	88	1	326	26	7	25	41	1.81
1139298--1139516	34	6.5	34	85	2	280	25	7	26	40	1.82
1139298--1139516	102	2.2	101	91	1	357	25	7	26	40	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1140652--1140739	43	2.0	43	97	0	167	42	4	1	52	1.29
1140726--1140783	22	2.4	25	76	21	70	36	3	0	60	1.14
1140727--1140783	24	2.4	25	80	16	68	35	3	0	61	1.13
1141715--1141751	17	2.2	17	90	0	56	45	0	5	48	1.25
1141876--1141905	13	2.2	14	94	5	53	80	0	0	20	0.72
1143649--1143775	12	10.2	12	70	13	64	42	0	0	56	1.04
1143643--1143735	32	2.8	33	80	12	102	44	0	1	54	1.07
1143730--1143768	17	2.2	18	90	4	62	35	0	0	64	0.94
1143649--1143780	35	3.5	37	71	22	89	41	0	0	57	1.04
1143640--1143786	17	8.9	17	66	26	59	40	0	0	59	1.03

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21