genome.fa.s154.2.7.7.80.10.50.1000.8.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: Scaffold154
Parameters: 2 7 7 80 10 50 1000
Length:  1945843

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

This is table  8  of  12  ( 1433 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)
1030435--1030547	12	8.4	12	70	23	59	45	2	0	51	1.21
1030472--1030549	28	3.0	25	77	18	88	44	2	0	52	1.14
1030484--1030549	12	5.2	12	72	13	60	43	3	0	53	1.16
1031344--1031451	17	6.5	16	75	16	78	41	0	0	58	0.98
1031342--1031404	16	3.9	16	76	15	67	46	0	0	53	1.00
1031344--1031404	15	3.9	15	79	14	61	45	0	0	54	1.00
1031368--1031448	5	17.2	5	71	21	68	40	0	0	59	0.98
1031348--1031418	16	4.9	16	69	25	52	43	0	0	56	0.99
1031364--1031447	19	4.4	19	76	15	75	40	0	0	59	0.97
1031352--1031448	33	2.8	33	79	13	99	41	0	0	58	0.98
1034178--1034206	11	2.7	11	94	5	51	58	0	0	41	0.98
1034170--1034258	29	3.2	28	78	13	78	50	0	3	46	1.18
1034879--1034918	21	2.0	20	85	9	55	30	15	10	45	1.78
1035160--1035206	19	2.4	20	82	7	60	25	14	23	36	1.93
1035938--1035991	20	2.7	20	88	5	74	33	12	20	33	1.91
1038932--1039181	131	1.9	131	94	0	446	23	12	16	47	1.81
1041590--1041631	22	1.9	22	85	9	59	50	0	0	50	1.00
1041596--1041691	37	2.7	36	77	16	103	47	2	0	50	1.12
1042306--1042373	31	2.1	33	81	15	79	48	0	1	50	1.10
1042619--1042657	20	1.9	21	85	15	55	64	0	0	35	0.94
1050092--1050168	31	2.5	31	78	6	84	44	1	1	53	1.17
1050138--1050183	18	2.6	17	78	18	58	52	0	2	45	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1051618--1051663	19	2.4	20	75	17	53	50	4	8	36	1.53
1057729--1057763	2	17.5	2	100	0	70	48	51	0	0	1.00
1061279--1061305	3	9.0	3	100	0	54	66	0	0	33	0.92
1062319--1062356	19	2.0	19	89	0	58	73	5	5	15	1.19
1062963--1062994	9	3.6	9	91	0	55	37	0	0	62	0.95
1063054--1063102	25	1.9	26	83	4	64	46	0	0	53	1.00
1063789--1063819	12	2.6	12	89	0	53	90	0	9	0	0.46
1064086--1064122	14	2.4	17	86	13	53	67	0	0	32	0.91
1065147--1065221	36	2.1	36	89	0	114	44	14	9	32	1.77
1066488--1066529	14	3.0	14	79	10	50	71	0	2	26	0.98
1067083--1067133	23	2.2	23	85	3	66	82	0	17	0	0.67
1067083--1067133	12	4.2	12	78	11	52	82	0	17	0	0.67
1068921--1068962	20	2.1	20	86	0	57	40	2	2	54	1.26
1072363--1072396	2	17.5	2	93	6	61	50	0	0	50	1.00
1072974--1073079	51	2.1	51	98	0	203	47	9	7	35	1.64
1073044--1073132	30	2.9	31	88	5	144	55	7	0	37	1.29
1073044--1073131	16	5.7	15	81	9	106	54	7	0	37	1.30
1076240--1076281	13	3.2	13	100	0	84	28	14	16	40	1.88
1091807--1091846	21	2.0	21	90	5	64	30	17	12	40	1.86
1091811--1092008	91	2.2	91	92	0	324	37	14	12	35	1.84
1091995--1092021	13	2.1	13	100	0	54	40	14	14	29	1.86
1092070--1092123	20	2.7	20	91	0	90	27	14	11	46	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1094099--1094176	20	3.8	20	76	8	77	32	12	11	43	1.79
1108060--1108124	8	8.6	8	72	11	57	84	9	4	1	0.82
1108057--1108124	23	3.1	22	81	6	84	85	8	4	1	0.79
1109342--1110516	28	41.5	28	86	5	1453	27	30	17	23	1.97
1111118--1111195	20	3.8	20	76	8	77	32	12	11	43	1.79
1118284--1118401	50	2.3	51	82	10	152	32	10	28	28	1.90
1118238--1118479	129	1.9	129	86	5	346	35	10	25	29	1.89
1118336--1118700	79	4.6	77	82	9	369	34	11	26	28	1.91
1118336--1118700	158	2.3	159	82	7	433	34	11	26	28	1.91
1121044--1121179	51	2.7	51	87	3	186	42	13	15	28	1.84
1121810--1121835	12	2.2	12	100	0	52	65	0	0	34	0.93
1126326--1126367	17	2.4	18	84	11	61	30	0	9	59	1.29
1126331--1126379	16	3.1	16	82	8	55	30	0	12	57	1.36
1130746--1130912	90	1.8	91	92	1	282	44	11	14	29	1.80
1130786--1130912	20	5.8	20	69	17	83	44	11	13	30	1.78
1132298--1132338	22	1.9	21	85	5	55	58	0	0	41	0.98
1133768--1133794	2	13.5	2	100	0	54	51	0	0	48	1.00
1134540--1134633	44	2.2	43	78	16	104	39	1	7	52	1.37
1134648--1134698	14	3.7	14	76	5	50	56	1	1	39	1.22
1134713--1134773	29	2.2	27	81	18	72	49	1	1	47	1.21
1134790--1134835	19	2.5	19	89	3	67	41	2	0	56	1.11
1135467--1135634	87	1.9	87	84	4	223	27	23	7	42	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1138607--1138694	37	2.3	38	90	7	144	48	5	20	25	1.71
1141144--1141173	2	15.0	2	100	0	60	50	0	0	50	1.00
1143553--1143747	91	2.2	90	95	0	345	29	14	16	38	1.89
1144540--1144585	15	2.7	18	80	19	71	30	13	17	39	1.87
1158221--1158254	13	2.6	13	90	9	52	85	5	5	2	0.83
1159425--1159463	14	2.9	13	85	7	51	33	12	15	38	1.85
1159476--1159889	28	14.8	28	78	7	387	28	29	18	23	1.97
1159843--1159964	32	3.8	31	78	14	115	27	27	19	24	1.99
1160909--1160962	20	2.7	20	85	0	63	33	12	12	40	1.82
1160859--1161013	71	2.2	71	87	1	213	28	16	12	42	1.85
1172634--1172734	51	2.0	51	92	3	168	19	23	10	45	1.82
1173619--1173650	16	2.0	16	100	0	64	31	25	6	37	1.81
1174205--1174229	1	25.0	1	100	0	50	100	0	0	0	0.00
1177577--1177651	38	2.0	38	100	0	150	42	21	16	20	1.89
1181025--1181057	6	5.5	6	92	0	57	3	0	30	66	1.06
1181152--1181184	5	6.6	5	96	0	57	0	36	21	42	1.53
1183261--1183301	20	2.0	20	100	0	82	29	24	4	41	1.75
1184056--1184090	2	17.5	2	93	0	61	45	0	0	54	0.99
1184660--1184698	20	1.9	20	89	5	60	38	17	15	28	1.91
1184780--1184805	10	2.6	10	100	0	52	19	26	11	42	1.85
1184797--1184827	14	2.2	14	94	0	53	25	19	12	41	1.87
1185202--1185246	15	3.2	15	75	15	51	15	2	15	66	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1192931--1193344	28	14.8	28	79	7	405	28	29	18	23	1.98
1192922--1193249	111	2.9	112	85	4	412	28	28	17	25	1.98
1193298--1193419	32	3.8	31	78	10	113	27	28	18	24	1.98
1192937--1193419	56	8.4	61	76	13	174	27	29	18	24	1.98
1193298--1193408	31	3.5	31	80	8	116	27	27	20	23	1.99
1194365--1194418	20	2.7	20	88	0	72	31	12	14	40	1.84
1194315--1194469	71	2.2	71	87	3	215	27	15	13	43	1.84
1200523--1200548	13	2.0	13	100	0	52	38	15	15	30	1.88
1200505--1200568	32	2.0	33	90	3	103	42	15	14	28	1.86
1211001--1211075	38	2.0	38	94	0	132	44	21	16	18	1.87
1216660--1216700	20	2.0	20	100	0	82	29	24	4	41	1.75
1217456--1217482	2	13.5	2	100	0	54	48	0	0	51	1.00
1220512--1220557	18	2.6	18	85	0	65	10	8	39	41	1.71
1220531--1220610	9	9.6	9	68	15	64	13	2	37	46	1.57
1220533--1220594	24	2.6	24	94	0	106	12	3	38	45	1.59
1220706--1220892	84	2.2	84	84	3	243	27	37	6	28	1.81
1225552--1225623	36	2.0	35	84	7	92	29	29	9	31	1.89
1226075--1226126	20	2.6	20	93	0	95	30	21	11	36	1.89
1226123--1226183	24	2.5	24	89	0	86	49	9	16	24	1.76
1227111--1227179	30	2.2	31	78	14	79	33	28	5	31	1.81
1229384--1229441	21	2.8	21	82	15	75	20	25	1	51	1.57
1231037--1231126	36	2.7	34	78	11	107	31	24	13	31	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1231594--1231646	14	3.8	14	89	0	79	45	13	20	20	1.84
1239108--1239258	69	2.2	68	89	7	225	31	22	9	36	1.86
1239970--1240005	16	2.2	16	100	0	72	22	22	22	33	1.97
1246726--1246790	32	2.0	32	87	3	94	26	15	16	41	1.88
1246756--1246812	19	2.9	19	86	5	69	29	19	15	35	1.93
1246857--1246887	13	2.4	13	94	0	53	35	16	12	35	1.87
1246841--1246907	33	2.0	32	86	11	91	35	11	19	32	1.88
1250000--1250250	29	8.6	28	84	7	281	29	33	14	22	1.94
1251401--1251475	20	3.8	20	83	3	98	30	10	13	45	1.77
1254171--1254220	14	3.4	15	78	18	52	76	0	22	2	0.89

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