genome.fa.s385.2.7.7.80.10.50.1000.9.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: Scaffold385
Parameters: 2 7 7 80 10 50 1000
Length:  1395621

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

This is table  9  of  10  ( 1109 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)
1056439--1056468	2	15.0	2	100	0	60	50	0	0	50	1.00
1061843--1061882	20	2.0	20	100	0	80	40	10	20	30	1.85
1069268--1069324	20	2.9	19	79	12	53	33	1	1	63	1.15
1072217--1072389	62	2.8	60	89	3	274	27	16	22	32	1.96
1072217--1072398	60	3.0	60	88	3	283	28	16	23	32	1.96
1074227--1074264	17	2.2	17	95	0	67	52	0	0	47	1.00
1074419--1074468	27	1.9	27	92	8	86	42	0	0	58	0.98
1074416--1074482	32	2.0	34	86	11	95	44	0	0	55	0.99
1074427--1074496	32	2.2	32	82	12	83	45	0	0	54	0.99
1074956--1074999	21	2.0	24	86	13	67	43	0	0	56	0.99
1074974--1075030	18	3.1	18	85	7	62	47	0	0	52	1.00
1074954--1075030	20	3.9	21	77	19	85	45	0	0	54	0.99
1077403--1077433	14	2.3	13	94	5	53	67	9	0	22	1.19
1078378--1078419	11	3.9	11	82	17	61	71	0	0	28	0.86
1078375--1078426	22	2.3	23	90	9	81	69	0	0	30	0.89
1091882--1091912	2	15.5	2	100	0	62	0	51	0	48	1.00
1095423--1095471	25	2.0	23	88	7	71	69	0	0	30	0.89
1097821--1097866	18	2.6	18	100	0	92	15	21	17	45	1.85
1097919--1097943	3	8.3	3	100	0	50	32	0	0	68	0.90
1102785--1102811	2	13.5	2	100	0	54	51	0	0	48	1.00
1104819--1104868	26	1.9	26	84	15	68	42	4	0	54	1.19
1106792--1106826	14	2.5	14	95	0	61	40	0	8	51	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1106792--1106826	16	2.2	16	94	0	61	40	0	8	51	1.33
1111042--1111076	2	17.5	2	100	0	70	48	0	51	0	1.00
1116879--1116905	3	9.0	3	100	0	54	33	0	33	33	1.58
1117929--1117974	10	4.7	10	82	10	51	28	4	0	67	1.10
1129111--1129135	2	12.5	2	100	0	50	48	0	0	52	1.00
1129178--1129219	3	14.0	3	100	0	84	66	0	0	33	0.92
1129513--1129549	3	12.7	3	94	5	67	35	0	0	64	0.94
1129552--1129585	3	11.3	3	87	0	50	0	26	35	38	1.57
1129875--1129899	7	3.6	7	100	0	50	12	0	0	88	0.53
1130231--1130257	14	1.9	14	100	0	54	14	44	0	40	1.46
1131829--1131853	11	2.3	11	100	0	50	28	28	8	36	1.85
1140914--1140958	22	2.1	21	83	4	54	57	0	0	42	0.98
1141116--1141993	218	4.0	218	86	3	1171	34	14	13	37	1.86
1146150--1146174	2	12.5	2	100	0	50	48	0	0	52	1.00
1146592--1146633	22	1.9	21	85	9	57	45	0	0	54	0.99
1146675--1146731	27	2.1	27	90	3	87	50	0	0	49	1.00
1147253--1147294	2	21.0	2	100	0	84	0	50	0	50	1.00
1155778--1155834	28	2.0	30	86	6	82	49	3	0	47	1.18
1155888--1155952	27	2.4	27	82	5	78	63	4	3	29	1.30
1155899--1155951	27	1.9	27	88	3	79	64	3	3	28	1.28
1159921--1159962	3	14.0	3	100	0	84	33	0	0	66	0.92
1160452--1160477	2	13.0	2	100	0	52	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)
1163430--1163482	16	3.1	17	84	10	56	47	1	0	50	1.12
1163768--1163797	2	15.0	2	100	0	60	50	0	0	50	1.00
1167233--1167276	2	22.0	2	95	0	79	50	2	0	47	1.13
1168958--1169075	21	5.2	21	66	25	62	57	0	0	41	1.04
1168962--1169075	23	4.9	23	70	19	85	57	0	0	41	1.04
1171576--1171610	15	2.3	15	95	0	61	48	0	0	51	1.00
1171555--1171599	22	2.0	23	86	4	65	35	0	0	64	0.94
1172027--1172067	16	2.5	16	88	4	55	31	0	2	65	1.05
1172552--1172586	2	17.5	2	100	0	70	0	48	0	51	1.00
1175645--1175679	10	3.4	11	88	11	56	48	0	0	51	1.00
1182532--1182575	22	2.0	22	100	0	88	31	4	9	54	1.52
1189799--1189832	2	17.0	2	100	0	68	0	50	0	50	1.00
1191855--1191882	2	14.0	2	100	0	56	50	0	0	50	1.00
1196443--1196480	2	19.0	2	100	0	76	0	50	0	50	1.00
1196686--1196736	22	2.3	21	80	12	57	47	1	0	50	1.12
1199912--1199946	2	17.5	2	93	0	61	51	0	0	48	1.00
1204798--1204875	37	2.0	39	90	7	124	44	16	7	30	1.76
1207521--1207560	2	20.0	2	89	0	62	45	0	0	55	0.99
1208275--1208312	2	19.5	2	89	5	60	50	2	0	47	1.15
1208828--1208859	2	16.0	2	93	0	55	46	0	53	0	1.00
1216657--1216704	6	8.0	6	97	0	78	16	16	37	29	1.91
1217886--1217920	11	3.3	11	88	4	54	22	5	0	71	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1224190--1224219	2	15.0	2	100	0	60	0	50	0	50	1.00
1224812--1224844	15	2.1	16	94	5	59	54	9	0	36	1.32
1229975--1229999	6	4.2	6	100	0	50	0	0	16	84	0.63
1230665--1230707	2	22.0	2	85	4	61	46	2	0	51	1.13
1230659--1230696	12	3.2	12	92	0	58	52	5	0	42	1.24
1231210--1231269	23	2.5	25	81	15	65	51	1	0	46	1.10
1232898--1232934	3	12.3	3	100	0	74	32	0	0	67	0.91
1237262--1237290	5	5.8	5	100	0	58	82	0	17	0	0.66
1252877--1252923	2	24.0	2	95	4	87	51	0	0	48	1.00
1253021--1253058	2	19.0	2	94	0	67	50	0	2	47	1.15
1255546--1255577	11	2.8	11	95	4	55	68	0	0	31	0.90
1255557--1255602	17	2.9	16	93	6	76	63	0	0	36	0.95
1255530--1255639	41	2.7	41	78	12	113	61	3	0	34	1.13
1255538--1255698	8	20.1	8	65	22	54	60	1	0	38	1.05
1255793--1255826	15	2.3	15	90	10	52	79	0	17	2	0.86
1255972--1256005	4	8.5	4	86	0	50	0	26	5	67	1.13
1257076--1257106	2	15.5	2	100	0	62	0	48	0	51	1.00
1259705--1259729	3	8.3	3	100	0	50	32	32	0	36	1.58
1262972--1263007	2	18.5	2	94	5	65	52	0	47	0	1.00
1262972--1263005	17	2.0	17	100	0	68	52	0	47	0	1.00
1262972--1263009	19	2.0	19	100	0	76	52	0	47	0	1.00
1263556--1263607	2	26.0	2	88	0	77	46	1	1	50	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1264475--1264507	2	16.5	2	100	0	66	48	0	0	51	1.00
1264782--1264838	13	4.4	13	82	6	62	42	0	0	57	0.98
1265733--1265893	81	2.0	82	93	1	279	29	37	12	20	1.89
1271351--1271386	17	2.1	18	89	5	56	13	8	0	77	0.98
1273264--1273302	15	2.5	17	88	12	57	43	2	0	53	1.14
1273662--1273871	22	9.4	22	68	9	75	33	10	4	51	1.56
1274512--1274719	50	4.2	50	95	2	364	29	19	22	28	1.98
1279114--1279372	50	5.2	50	89	1	376	30	18	20	31	1.96
1281358--1281430	11	6.6	11	71	10	51	36	1	0	61	1.05
1281334--1281456	27	4.4	28	73	14	94	41	1	0	56	1.15
1283764--1283805	18	2.3	18	91	4	66	23	47	7	21	1.75
1290756--1290811	11	5.1	11	79	12	62	62	0	1	35	1.06
1290760--1290811	12	4.7	11	79	18	56	61	0	1	36	1.07
1290760--1290848	28	3.0	29	78	15	83	62	3	1	32	1.19
1290796--1290881	28	3.1	27	73	15	77	60	4	0	34	1.17
1290878--1290919	16	2.5	17	80	11	50	52	2	0	45	1.13
1292161--1292194	2	17.0	2	100	0	68	50	0	0	50	1.00
1301776--1301899	61	2.0	61	96	0	230	54	11	16	18	1.71
1306534--1306721	75	2.5	75	84	0	232	42	10	6	40	1.64
1306982--1307041	27	2.2	27	87	0	84	30	5	41	23	1.75
1312061--1312130	32	2.3	30	82	9	79	51	17	0	31	1.45
1312203--1312272	28	2.4	30	83	7	81	68	4	0	27	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1312231--1312277	19	2.4	20	79	13	53	72	2	0	25	0.96
1312312--1312355	21	2.1	21	86	0	61	45	0	27	27	1.54
1312323--1312366	21	2.0	21	82	8	52	45	0	31	22	1.53
1313464--1313490	2	13.5	2	100	0	54	51	48	0	0	1.00
1313490--1313521	2	16.0	2	100	0	64	50	0	0	50	1.00
1316138--1316169	6	5.3	6	100	0	64	15	31	18	34	1.93
1319761--1319793	2	16.5	2	100	0	66	51	0	48	0	1.00
1326834--1326947	1	114.0	1	76	0	84	0	7	6	85	0.72
1326836--1326949	29	4.0	29	95	4	198	0	9	6	84	0.78
1326836--1326949	59	2.0	55	93	6	192	0	9	6	84	0.78

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