genome.fa.s163.2.7.7.80.10.50.1000.9.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: Scaffold163
Parameters: 2 7 7 80 10 50 1000
Length:  1788591

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   

This is table  9  of  13  ( 1505 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)
1133306--1133370	32	2.0	32	100	0	130	41	6	6	46	1.54
1136662--1136703	22	1.9	22	85	9	59	45	11	0	42	1.41
1136695--1136760	22	2.9	23	73	15	73	59	0	0	40	0.98
1136694--1136780	30	2.9	30	79	6	95	60	0	0	39	0.97
1136694--1136770	15	5.0	16	71	13	72	58	0	0	41	0.98
1136952--1136992	2	20.5	2	94	0	73	48	0	2	48	1.14
1138993--1139027	18	1.9	18	94	0	61	31	0	2	65	1.07
1138996--1139041	18	2.5	19	79	10	51	36	0	2	60	1.09
1140071--1140110	15	2.6	16	88	4	55	42	2	0	55	1.13
1148226--1148259	16	2.1	17	88	5	52	23	0	0	76	0.79
1148379--1148429	13	4.1	13	76	16	54	47	0	0	52	1.00
1148586--1148691	17	6.7	15	71	21	58	37	0	0	61	1.03
1148630--1148702	30	2.4	29	82	10	85	36	0	1	61	1.05
1148653--1148704	5	10.8	5	78	15	56	34	0	1	63	1.06
1148579--1148679	40	2.5	40	74	9	107	39	0	0	60	0.97
1153210--1153248	2	20.0	2	94	5	71	51	0	0	48	1.00
1158324--1158449	46	2.7	46	81	3	144	57	7	2	32	1.38
1159878--1159929	25	2.1	25	100	0	104	44	19	9	26	1.81
1164983--1165173	95	2.0	94	86	1	265	41	21	12	24	1.88
1166878--1166921	9	4.9	9	80	0	52	61	0	0	38	0.96
1166878--1166925	18	2.7	18	83	0	60	64	0	0	35	0.94
1166873--1166939	28	2.4	27	86	13	93	59	0	0	40	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1166998--1167060	17	3.5	17	74	21	58	42	0	0	57	0.99
1166988--1167060	39	1.9	37	86	10	103	42	0	0	57	0.98
1166988--1167060	38	1.9	39	86	10	107	42	0	0	57	0.98
1167080--1167203	21	5.6	21	67	21	67	47	2	1	48	1.24
1167140--1167181	12	3.2	13	80	10	50	45	0	0	54	0.99
1167788--1167843	23	2.4	23	82	8	60	55	0	1	42	1.10
1167973--1168015	4	10.8	4	89	0	68	27	2	0	69	1.00
1168460--1168496	16	2.3	16	90	9	58	51	0	0	48	1.00
1168522--1168574	18	3.3	16	78	14	56	49	0	0	50	1.00
1168517--1168563	18	2.8	17	84	9	62	46	0	0	53	1.00
1168534--1168584	18	2.9	18	83	13	54	52	0	0	47	1.00
1168548--1168609	16	3.7	15	78	18	61	54	0	0	45	0.99
1168698--1168755	15	3.7	16	77	11	57	70	0	10	18	1.15
1168700--1168755	16	3.6	15	76	7	58	69	0	10	19	1.17
1168780--1168854	37	2.1	37	97	2	143	58	10	5	25	1.52
1168917--1168952	13	2.7	13	91	4	54	72	0	0	27	0.85
1168917--1168977	20	3.0	21	81	13	65	65	0	0	34	0.93
1168923--1168970	19	2.5	19	83	10	53	64	0	0	35	0.94
1169058--1169083	6	4.3	6	100	0	52	15	0	0	84	0.62
1171112--1171184	36	2.0	36	81	5	85	35	9	23	31	1.87
1172161--1172185	4	6.2	4	100	0	50	24	0	24	52	1.48
1175418--1175492	28	2.7	26	82	13	96	45	1	0	53	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1179944--1179986	22	2.0	22	95	0	77	41	4	16	37	1.69
1180356--1180467	21	5.4	21	75	15	81	38	0	0	59	1.10
1180366--1180475	15	7.8	15	66	25	53	38	0	0	60	1.10
1180430--1180472	13	3.1	14	83	10	52	44	0	0	55	0.99
1180424--1180499	27	3.0	25	83	12	86	44	2	0	52	1.14
1180387--1180481	38	2.4	38	86	6	120	38	1	0	60	1.04
1180475--1180500	11	2.4	11	100	0	52	53	7	0	38	1.30
1181525--1181571	16	3.1	15	79	8	51	53	0	0	46	1.00
1182699--1182749	24	2.2	24	96	3	95	37	17	3	41	1.68
1184143--1184216	31	2.4	32	78	17	84	55	0	0	44	0.99
1185729--1185770	15	2.9	15	89	3	59	59	2	2	35	1.23
1185762--1185819	23	2.6	22	78	5	62	63	5	6	24	1.40
1185904--1185936	10	3.4	10	87	8	50	66	0	0	33	0.92
1187167--1187205	12	3.2	12	88	0	60	66	0	33	0	0.92
1187169--1187207	14	2.8	14	92	0	60	66	0	33	0	0.92
1187171--1187209	12	3.2	12	88	0	60	66	0	33	0	0.92
1187470--1187555	39	2.3	36	82	11	93	45	1	2	51	1.21
1191038--1191111	19	3.8	18	78	20	69	31	2	1	64	1.15
1191080--1191119	15	2.7	15	84	7	55	22	0	0	77	0.77
1191337--1191395	17	3.5	17	71	17	59	35	6	8	49	1.60
1195036--1195093	19	3.1	19	80	5	64	32	1	1	63	1.14
1196680--1196724	23	2.0	23	91	8	74	66	0	2	31	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1197455--1197496	14	3.0	14	80	10	50	61	0	2	35	1.09
1198473--1198503	13	2.4	13	94	0	53	35	0	3	61	1.12
1201221--1201254	17	1.9	17	88	5	50	35	0	2	61	1.11
1201318--1201415	27	3.7	29	74	20	74	46	0	0	53	1.00
1201349--1201415	27	2.5	28	86	13	88	50	0	0	49	1.00
1201403--1201450	20	2.5	19	83	6	60	68	0	0	31	0.90
1201816--1201913	9	11.1	9	71	9	51	35	1	6	57	1.31
1201974--1202037	23	2.8	23	83	2	76	51	10	0	37	1.37
1201974--1202045	23	3.2	22	75	9	65	52	11	0	36	1.37
1202342--1202380	15	2.6	14	88	8	51	66	0	0	33	0.92
1202353--1202393	15	2.5	17	82	17	52	63	0	2	34	1.08
1202396--1202446	25	2.0	24	85	14	68	37	0	7	54	1.29
1202500--1202546	15	3.3	14	77	14	51	61	0	2	36	1.08
1202563--1202623	26	2.2	27	85	8	79	59	1	0	39	1.08
1205176--1205265	34	2.8	32	80	12	89	51	1	0	47	1.08
1205190--1205265	11	6.8	11	73	16	59	50	1	0	48	1.09
1205190--1205269	23	3.6	22	77	14	69	48	2	0	48	1.14
1205550--1205603	28	1.9	28	81	7	65	44	7	1	46	1.42
1207248--1207276	13	2.1	14	93	6	51	62	0	0	37	0.96
1208650--1208689	20	2.0	20	95	0	71	15	12	15	57	1.66
1208718--1208759	16	2.5	17	76	3	50	11	16	7	64	1.48
1209920--1209966	5	9.4	5	79	9	51	4	59	21	14	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1209920--1209975	15	3.7	15	79	13	62	5	62	19	12	1.49
1209933--1209971	20	2.0	20	89	0	60	7	61	20	10	1.52
1213838--1214023	84	2.2	84	81	7	209	30	12	10	46	1.75
1216094--1216246	28	5.5	28	72	9	114	44	5	15	34	1.70
1216111--1216298	84	2.2	84	84	3	245	44	4	14	36	1.67
1219724--1219775	17	3.2	17	70	29	58	38	0	1	59	1.08
1219725--1219774	15	3.2	15	74	25	50	40	0	2	58	1.10
1224385--1224513	52	2.5	52	81	0	177	30	16	16	37	1.91
1224522--1224546	13	1.9	13	100	0	50	36	16	16	32	1.90
1224600--1224649	19	2.6	19	93	0	91	42	18	10	30	1.82
1227664--1227703	21	1.9	21	90	10	64	32	30	5	32	1.79
1230315--1230365	24	2.2	24	89	3	77	47	17	5	29	1.71
1232814--1232854	12	3.4	12	78	21	50	24	0	2	73	0.96
1232816--1232846	16	1.9	16	93	0	53	25	0	0	74	0.82
1234150--1234186	19	1.9	19	88	0	56	21	0	2	75	0.92
1235350--1235390	19	2.1	20	95	4	75	70	4	12	12	1.31
1236683--1236727	23	2.0	23	87	12	67	37	4	0	57	1.19
1239444--1239483	2	20.0	2	100	0	80	50	0	0	50	1.00
1248878--1248943	18	3.7	18	77	0	69	46	28	3	21	1.66
1248878--1248911	16	2.1	16	88	0	50	50	23	0	26	1.50
1248887--1248933	12	3.9	12	85	0	58	48	23	2	25	1.62
1248883--1248922	16	2.5	16	87	0	53	50	25	0	25	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1248900--1248939	12	3.3	12	85	0	53	45	30	5	20	1.72
1249216--1249261	22	2.1	22	100	0	92	26	19	4	50	1.66
1260910--1260935	2	13.0	2	100	0	52	50	0	0	50	1.00
1270843--1270878	16	2.2	16	95	0	63	47	2	16	33	1.61
1271736--1271776	21	2.0	22	85	9	59	48	0	2	48	1.14
1272168--1272201	2	16.5	2	93	6	59	47	0	2	50	1.16
1272385--1272420	18	2.0	18	88	0	54	36	0	2	61	1.11
1272819--1272858	17	2.3	18	86	4	55	32	15	20	32	1.93
1275822--1275858	13	2.8	14	88	8	51	43	0	5	51	1.24
1275998--1276038	19	2.0	21	90	9	68	29	17	4	48	1.67

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13