genome.fa.s41.2.7.7.80.10.50.1000.10.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: Scaffold41
Parameters: 2 7 7 80 10 50 1000
Length:  2798036

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  ( 2447 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)
956132--956165	12	2.9	12	86	4	52	29	0	0	70	0.87
956120--956174	23	2.6	21	75	18	60	36	0	0	63	0.95
956852--956889	14	2.6	15	83	4	51	36	0	5	57	1.21
957294--957378	36	2.3	36	85	6	107	54	0	1	44	1.07
962141--962169	2	14.5	2	100	0	58	51	0	0	48	1.00
964564--964650	30	3.0	28	79	6	93	52	2	10	34	1.48
965129--965189	21	2.9	21	85	7	79	55	0	0	44	0.99
966723--966782	11	5.1	11	75	15	57	31	3	1	63	1.20
966732--966783	13	4.2	13	80	9	72	28	1	1	67	1.12
966723--966791	13	5.7	12	78	13	70	33	2	1	62	1.19
966723--966791	24	2.8	24	84	4	93	33	2	1	62	1.19
967953--968017	19	3.6	17	73	22	62	60	3	0	36	1.13
967963--968018	29	1.9	29	85	7	78	58	3	0	37	1.15
967953--968017	6	10.8	6	73	23	57	60	3	0	36	1.13
968996--969035	21	1.9	21	90	10	64	60	0	0	40	0.97
969966--970017	25	2.2	23	83	16	63	38	3	0	57	1.17
970472--970515	20	2.2	20	80	12	54	54	0	0	45	0.99
970478--970517	20	2.1	19	90	4	62	50	0	0	50	1.00
971925--971959	18	1.9	18	100	0	70	68	2	0	28	1.04
974063--974128	23	2.8	23	70	17	64	37	3	0	59	1.13
974179--974225	18	2.7	18	80	6	53	55	4	0	40	1.19
974215--974272	28	2.1	28	83	6	73	60	1	3	34	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
977859--977912	18	2.9	18	81	10	56	11	18	1	68	1.28
977883--977924	18	2.5	18	81	11	54	7	19	4	69	1.31
983775--984018	79	3.1	76	78	12	251	30	6	29	32	1.84
983775--984059	158	1.8	158	80	3	351	32	8	28	31	1.87
986472--986606	50	2.6	51	84	7	177	40	11	14	33	1.82
986669--986715	20	2.3	21	88	3	69	31	23	10	34	1.89
987715--987760	23	2.0	22	84	16	58	41	2	6	50	1.40
989936--989980	23	1.9	23	86	4	63	57	4	33	4	1.38
1001002--1001045	19	2.3	19	96	0	79	25	9	15	50	1.74
1001664--1001726	3	21.0	3	93	0	108	33	30	0	36	1.58
1008763--1008797	2	17.5	2	93	0	61	45	0	2	51	1.16
1009255--1009304	15	3.4	15	77	5	66	66	0	0	34	0.92
1010691--1010748	21	2.7	21	81	10	64	55	1	0	43	1.10
1011341--1011390	16	3.1	16	77	11	66	24	8	2	66	1.29
1011792--1011851	16	3.7	17	73	10	63	55	13	1	30	1.48
1011783--1011846	32	2.0	31	82	8	76	53	10	3	32	1.52
1017354--1017401	19	2.5	20	86	3	62	64	2	4	29	1.23
1021117--1021163	23	2.0	23	100	0	94	38	17	4	40	1.69
1022197--1022227	16	1.9	16	93	0	53	29	0	0	70	0.87
1023233--1023261	3	9.7	3	100	0	58	0	34	34	31	1.58
1023458--1023537	24	3.3	23	77	6	63	17	25	16	41	1.89
1025454--1025500	2	23.5	2	86	0	67	48	6	0	44	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1032844--1032972	52	2.5	52	93	0	222	30	17	17	35	1.92
1032844--1032992	52	2.9	51	87	4	210	31	16	17	34	1.93
1032981--1033005	13	1.9	13	100	0	50	36	16	16	32	1.90
1033046--1033112	33	2.0	33	88	0	98	40	14	11	32	1.83
1033068--1033092	13	1.9	13	100	0	50	32	16	16	36	1.90
1035853--1035949	37	2.8	34	81	9	131	39	29	3	27	1.72
1038421--1038460	20	2.0	20	85	5	53	37	0	0	62	0.95
1042127--1042232	16	6.6	16	78	0	95	54	5	2	36	1.39
1042204--1042236	9	3.9	9	84	15	52	54	0	0	45	0.99
1042307--1042348	22	2.0	21	85	4	57	50	4	0	45	1.23
1042323--1042451	31	4.1	31	80	7	145	54	0	0	44	1.05
1042334--1042451	47	2.5	47	83	8	141	55	0	0	44	1.05
1042323--1042464	16	9.1	16	80	9	143	53	0	1	44	1.14
1042753--1042784	17	1.9	17	93	6	57	46	0	0	53	1.00
1043024--1043068	2	22.5	2	100	0	90	51	0	0	48	1.00
1043164--1043238	37	2.0	37	92	5	125	46	18	18	16	1.84
1052641--1052673	9	3.8	9	92	4	50	75	0	0	24	0.80
1052639--1052677	15	2.5	16	87	8	62	74	0	0	25	0.82
1058731--1058813	19	4.7	19	81	17	115	32	12	18	37	1.87
1058732--1058794	32	2.0	32	100	0	126	33	12	19	34	1.89
1058751--1058775	13	1.9	13	100	0	50	36	16	16	32	1.90
1070459--1070582	52	2.4	51	94	1	212	28	17	18	35	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1070459--1070602	52	2.8	51	88	5	202	29	17	18	34	1.94
1070591--1070615	13	1.9	13	100	0	50	36	16	16	32	1.90
1070657--1070722	33	2.0	33	87	0	96	39	13	12	34	1.82
1070678--1070702	13	1.9	13	100	0	50	32	16	16	36	1.90
1071663--1071731	22	3.2	22	62	25	56	30	17	26	26	1.97
1071539--1071825	49	5.8	49	82	9	302	31	16	25	26	1.96
1071818--1072022	30	7.0	30	77	13	103	19	17	30	32	1.95
1071830--1072298	58	8.0	59	75	10	329	23	17	29	29	1.97
1071830--1072086	88	2.9	87	90	4	383	20	17	29	32	1.96
1071846--1072298	30	15.5	30	77	10	375	24	16	29	29	1.97
1072123--1072294	29	5.9	29	82	4	177	25	18	29	26	1.98
1072008--1072289	121	2.4	115	79	6	298	26	17	29	26	1.97
1072130--1072300	86	2.0	86	84	2	227	23	18	30	27	1.98
1073736--1073851	1	116.0	1	75	0	79	1	3	9	85	0.79
1073736--1073849	12	9.6	11	76	19	90	1	3	9	85	0.80
1073745--1073852	43	2.6	40	79	13	110	1	3	10	84	0.83
1073736--1073851	36	3.3	35	80	12	116	1	3	9	85	0.79
1079798--1079850	21	2.5	22	82	14	67	41	15	18	24	1.89
1080683--1080811	52	2.5	52	96	0	240	28	18	17	34	1.94
1080871--1080941	32	2.2	32	84	0	97	38	14	11	36	1.81
1083278--1083391	27	4.1	27	77	14	108	83	12	4	0	0.79
1083278--1083391	30	3.8	28	77	12	111	83	12	4	0	0.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1083281--1083391	44	2.6	42	79	14	136	82	12	4	0	0.80
1083278--1083342	1	65.0	1	75	0	58	87	10	1	0	0.61
1084827--1084966	30	4.7	30	80	12	146	30	29	16	23	1.96
1084821--1084937	57	2.1	56	88	4	173	29	32	16	21	1.95
1084883--1085026	61	2.3	61	80	7	148	29	27	15	27	1.96
1085004--1085064	32	1.9	32	82	0	77	18	29	16	36	1.92
1085061--1085333	48	5.9	48	70	14	160	24	23	19	31	1.98
1085145--1085244	52	1.9	52	87	0	146	23	22	21	34	1.97
1085069--1085371	87	3.4	86	80	7	345	24	23	20	31	1.98
1085291--1085720	156	2.7	156	94	1	736	25	24	15	34	1.95
1085610--1085684	39	1.9	39	83	0	96	26	26	20	26	1.99
1086371--1086406	13	2.8	13	86	0	54	38	16	11	33	1.84
1086474--1086498	13	1.9	13	100	0	50	32	16	16	36	1.90
1090725--1090755	15	2.1	15	100	0	62	41	19	0	38	1.51
1098096--1098350	130	2.0	130	91	3	415	42	12	13	30	1.82
1101218--1101274	30	1.9	30	96	0	105	24	14	17	43	1.86
1106026--1106062	14	2.4	16	82	13	51	40	2	0	56	1.13
1107203--1107294	43	2.1	43	87	0	130	43	9	10	35	1.73
1110823--1110872	18	2.7	19	75	12	59	54	0	0	46	1.00
1110859--1110919	26	2.3	26	81	10	70	49	0	4	45	1.23
1111546--1111583	20	1.9	20	94	0	67	60	0	2	36	1.11
1111546--1111589	20	2.2	20	87	0	61	59	0	4	36	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1111711--1111741	15	2.1	14	94	5	53	41	6	3	48	1.45
1112080--1112196	16	7.3	16	66	18	55	43	17	14	23	1.87
1112080--1112198	32	3.7	32	77	4	123	44	17	14	23	1.85
1112075--1112199	48	2.6	47	75	14	121	44	19	13	23	1.86
1112261--1112301	21	1.9	22	85	5	57	53	0	4	41	1.22
1113275--1113352	32	2.4	33	82	4	88	48	20	7	23	1.75
1113435--1113474	15	2.6	15	88	4	53	55	7	0	37	1.29
1113723--1113766	12	3.4	13	81	9	54	63	2	0	34	1.07
1120819--1120856	2	19.0	2	94	0	67	50	2	0	47	1.15
1122658--1122690	17	1.9	17	100	0	66	30	0	15	54	1.41

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