genome.fa.s105.2.7.7.80.10.50.1000.7.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: Scaffold105
Parameters: 2 7 7 80 10 50 1000
Length:  2918491

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   

This is table  7  of  16  ( 1849 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)
1054166--1054205	20	1.9	22	85	10	57	42	7	0	50	1.30
1054407--1054455	12	4.5	10	83	16	62	77	0	0	22	0.77
1055165--1055205	20	2.0	20	85	4	55	41	4	0	53	1.22
1055600--1055750	29	5.2	29	71	19	86	54	0	2	41	1.19
1055661--1055782	56	2.2	53	83	11	140	59	1	2	36	1.21
1055844--1055871	12	2.3	12	100	0	56	67	0	0	32	0.91
1063841--1063865	1	25.0	1	100	0	50	0	0	0	100	0.00
1064334--1064361	2	14.0	2	100	0	56	50	0	0	50	1.00
1067252--1067286	18	2.0	18	88	5	54	22	2	0	74	0.95
1068538--1068576	2	19.5	2	100	0	78	0	51	0	48	1.00
1068790--1068815	4	6.5	4	100	0	52	73	0	0	26	0.84
1068865--1068908	20	2.3	20	84	7	56	50	4	0	45	1.22
1068921--1068960	18	2.2	18	86	0	53	62	2	2	32	1.22
1070194--1070234	21	2.0	21	85	9	57	39	0	0	60	0.96
1070216--1070274	30	1.9	30	86	6	82	52	1	0	45	1.10
1070216--1070274	31	1.9	29	83	10	73	52	1	0	45	1.10
1070779--1070812	13	2.5	14	85	4	52	50	0	0	50	1.00
1071889--1071919	2	15.5	2	93	0	53	48	3	0	48	1.17
1072539--1072609	14	5.4	13	76	17	58	63	0	1	35	1.03
1072586--1072695	41	2.7	39	76	17	107	58	0	1	39	1.15
1072761--1072821	23	2.6	23	87	7	79	59	0	0	40	0.98
1073175--1073220	22	2.1	22	84	8	58	43	0	2	54	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1073558--1073590	3	11.0	3	100	0	66	33	0	0	66	0.92
1073699--1073739	14	3.0	15	76	23	54	56	0	0	43	0.99
1073703--1073752	14	3.8	14	74	15	52	58	0	2	40	1.10
1073698--1073751	13	4.2	12	79	11	54	57	0	1	40	1.09
1073698--1073751	25	2.1	26	86	10	76	57	0	1	40	1.09
1075557--1075653	21	4.7	20	73	21	69	63	1	0	35	1.01
1075593--1075646	11	5.2	11	89	6	78	68	0	0	31	0.90
1075608--1075665	21	2.8	20	84	12	64	72	0	0	27	0.85
1075595--1075671	40	1.9	40	82	10	95	67	0	0	32	0.91
1078536--1078564	14	2.0	15	93	6	51	3	20	6	68	1.27
1080163--1080187	4	6.2	4	100	0	50	24	0	24	52	1.48
1080444--1080496	3	17.7	3	86	7	72	39	0	0	60	0.97
1085321--1085387	18	3.8	18	90	2	109	61	0	0	38	0.96
1085341--1085397	18	3.2	18	90	5	62	56	1	1	40	1.20
1085321--1085397	36	2.2	35	83	6	93	58	1	1	38	1.15
1085433--1085487	25	2.2	26	84	15	71	36	0	1	61	1.06
1085432--1085495	26	2.4	28	80	19	75	35	1	1	60	1.15
1086620--1086712	44	2.1	44	84	7	118	46	1	3	49	1.25
1087072--1087116	3	15.0	3	86	9	65	35	31	0	33	1.58
1087858--1087896	19	2.1	19	90	0	60	64	2	0	33	1.08
1088426--1088486	26	2.1	31	85	14	87	59	4	0	36	1.19
1088377--1088590	74	2.9	72	86	6	250	56	10	0	32	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1088734--1089068	73	4.6	70	81	9	338	56	10	1	31	1.41
1088730--1089071	144	2.4	145	81	7	408	55	10	1	32	1.42
1090223--1090279	3	19.0	3	92	0	96	33	3	0	63	1.12
1094188--1094225	2	19.0	2	100	0	76	50	0	0	50	1.00
1095376--1095400	3	8.3	3	100	0	50	32	0	0	68	0.90
1098186--1098250	31	2.1	32	85	8	89	49	23	0	27	1.50
1098175--1098414	73	3.3	72	82	6	259	56	13	1	28	1.46
1098375--1098469	46	2.1	45	82	3	120	56	7	1	34	1.34
1098624--1098819	74	2.7	71	83	7	243	54	8	1	35	1.41
1098624--1098835	72	2.9	70	78	10	221	54	8	1	35	1.40
1099758--1099826	3	24.0	3	81	8	81	34	2	1	60	1.20
1100152--1100203	13	3.8	13	80	14	59	59	1	0	38	1.08
1100147--1100210	29	2.2	29	88	2	94	57	1	0	40	1.08
1104271--1104302	2	16.0	2	93	0	55	0	53	0	46	1.00
1105579--1105610	16	2.0	16	93	0	55	28	0	0	71	0.86
1106921--1106952	2	16.0	2	100	0	64	50	0	0	50	1.00
1108663--1108711	24	2.2	24	86	13	70	36	0	0	63	0.95
1108674--1108764	30	3.0	31	76	9	116	31	0	3	64	1.09
1108785--1108935	30	5.1	30	73	10	114	52	1	3	41	1.31
1108785--1108935	60	2.6	58	81	7	153	52	1	3	41	1.31
1110010--1110042	17	1.9	17	88	11	50	60	0	0	39	0.97
1110028--1110077	19	2.5	20	84	12	68	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1110021--1110067	22	2.0	23	84	8	60	42	0	0	57	0.98
1110100--1110147	21	2.2	22	85	3	62	58	2	2	37	1.22
1110247--1110285	20	2.0	20	85	5	53	43	0	0	56	0.99
1110487--1110512	2	13.0	2	100	0	52	50	0	0	50	1.00
1116242--1116283	2	22.0	2	80	9	52	47	0	0	52	1.00
1116250--1116281	11	2.9	11	95	0	55	50	0	0	50	1.00
1116260--1116286	13	2.1	13	100	0	54	55	0	0	44	0.99
1118806--1118833	2	14.0	2	100	0	56	50	0	0	50	1.00
1120236--1120289	2	27.0	2	84	0	72	42	3	3	50	1.38
1121570--1121601	16	1.9	17	93	6	57	43	0	0	56	0.99
1121552--1121610	14	4.4	13	76	19	59	42	0	0	57	0.98
1121746--1121819	32	2.3	32	86	4	96	40	1	5	52	1.33
1121758--1121830	32	2.3	32	90	0	110	41	0	4	54	1.19
1122296--1122324	2	15.0	2	92	7	51	48	0	0	51	1.00
1122310--1122375	25	2.6	25	87	2	87	45	1	0	53	1.09
1122455--1122487	13	2.4	14	85	10	50	63	0	0	36	0.95
1123313--1123348	3	12.0	3	100	0	72	66	0	33	0	0.92
1129846--1129870	13	1.9	13	100	0	50	56	0	0	44	0.99
1130224--1130259	16	2.2	16	95	0	63	0	44	2	52	1.15
1130237--1130261	12	2.1	12	100	0	50	0	40	0	60	0.97
1144553--1144588	2	18.0	2	100	0	72	50	0	0	50	1.00
1146392--1146421	2	15.0	2	100	0	60	50	0	50	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1148706--1148891	94	2.0	95	92	1	311	47	13	18	19	1.82
1151282--1151312	4	7.8	4	92	0	53	29	0	19	51	1.47
1151273--1151312	12	3.3	12	89	0	62	32	0	17	50	1.47
1151278--1151314	8	4.6	8	93	0	56	32	0	16	51	1.45
1151543--1151590	19	2.6	18	84	12	62	45	0	2	52	1.12
1151528--1151634	42	2.5	44	79	13	118	45	0	0	53	1.06
1154537--1154561	13	1.9	13	100	0	50	60	0	0	40	0.97
1153752--1155468	855	2.0	854	98	0	3328	39	8	7	44	1.63
1155392--1155416	13	1.9	13	100	0	50	60	0	0	40	0.97
1155761--1155819	18	3.2	17	80	17	57	52	1	1	44	1.21
1156486--1156530	23	1.9	24	82	13	58	46	4	0	48	1.22
1160909--1160959	15	3.3	15	82	15	52	5	9	1	82	0.91
1160938--1161013	19	3.8	21	69	19	54	9	15	2	72	1.21
1163969--1164002	2	17.0	2	93	0	59	47	0	0	52	1.00
1164222--1164246	2	12.5	2	100	0	50	48	0	0	52	1.00
1164512--1164546	2	17.5	2	93	0	61	45	0	2	51	1.16
1164981--1165046	16	4.1	16	84	7	71	60	0	3	36	1.12
1164992--1165064	6	13.0	6	83	13	57	58	0	0	41	0.98
1165018--1165066	2	24.5	2	91	0	80	55	0	0	44	0.99
1165956--1165987	17	1.9	17	93	6	57	53	0	0	46	1.00
1167302--1167337	13	2.8	14	84	16	51	58	0	0	41	0.98
1167324--1167360	18	2.1	18	90	10	58	56	0	0	43	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1169089--1169127	2	19.5	2	100	0	78	48	0	0	51	1.00
1171212--1171244	12	2.8	12	95	0	57	30	0	18	51	1.46
1171809--1171879	2	35.5	2	88	0	106	43	0	5	50	1.25
1178313--1178349	16	2.3	16	90	0	56	37	5	2	54	1.38
1178396--1178428	15	2.1	16	88	5	50	48	0	0	51	1.00
1178393--1178479	17	5.0	17	68	23	56	47	1	0	51	1.08
1178847--1178894	12	4.1	12	81	10	55	54	0	0	45	0.99
1182380--1182496	57	2.1	57	91	0	189	38	1	6	52	1.38
1184111--1184290	72	2.4	75	87	3	249	55	11	2	30	1.50
1184440--1184646	73	2.8	72	86	4	290	56	8	0	33	1.37

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16