genome.fa.s1523.2.7.7.80.10.50.1000.5.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: scaffold23
Parameters: 2 7 7 80 10 50 1000
Length:  3824748

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

This is table  5  of  14  ( 1619 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)
1116883--1116946	19	3.2	19	78	13	67	51	6	0	42	1.27
1116882--1116934	19	2.8	18	85	5	70	52	7	0	39	1.30
1116902--1116951	26	1.9	26	83	0	64	54	6	0	40	1.25
1116882--1116937	18	3.1	18	77	12	60	53	7	0	39	1.28
1116938--1116976	20	2.0	20	100	0	78	56	0	0	43	0.99
1122781--1122810	14	2.1	14	93	0	51	33	16	0	50	1.46
1123968--1124007	19	2.2	17	91	8	62	10	7	0	82	0.84
1123997--1124035	19	1.9	19	85	10	51	2	25	2	69	1.14
1124883--1124930	20	2.4	21	82	10	64	62	0	6	31	1.20
1125020--1125054	18	1.9	18	88	0	52	48	2	17	31	1.61
1128432--1128471	17	2.4	17	87	4	55	75	2	0	22	0.93
1133835--1133946	10	10.5	10	72	20	70	20	2	2	74	1.07
1141324--1141378	24	2.3	23	79	14	58	7	12	7	72	1.26
1163701--1163791	45	2.0	45	85	2	121	37	28	6	27	1.82
1163772--1163840	16	4.2	16	96	3	129	37	37	0	24	1.56
1163772--1163840	33	2.1	32	97	2	129	37	37	0	24	1.56
1168362--1168475	62	1.9	59	87	5	165	50	5	5	39	1.48
1168454--1168502	20	2.7	18	77	22	57	51	4	2	42	1.32
1172940--1172972	16	2.1	16	100	0	66	30	6	36	27	1.81
1173350--1173388	17	2.5	15	84	12	51	58	0	0	41	0.98
1173174--1173779	212	2.9	212	99	0	1194	46	8	6	37	1.62
1173562--1173600	17	2.5	15	84	12	51	58	0	0	41	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1177756--1177839	28	2.7	33	71	19	88	29	22	21	26	1.99
1177771--1177836	28	2.4	28	87	5	89	27	21	24	27	1.99
1178126--1178290	27	6.2	26	80	4	177	20	18	18	43	1.89
1178124--1178281	81	2.0	80	88	3	237	19	19	18	41	1.90
1179021--1179062	20	2.2	19	87	8	59	54	0	38	7	1.28
1187570--1187609	22	1.9	21	85	10	55	52	0	25	22	1.47
1188076--1188185	40	2.8	40	76	5	105	40	17	20	20	1.91
1188324--1188406	38	2.2	37	80	4	87	42	12	19	26	1.86
1196388--1196464	30	2.6	29	78	10	84	41	12	24	20	1.88
1197770--1197823	21	2.7	19	78	13	54	72	1	5	20	1.14
1197815--1197846	14	2.3	14	94	0	55	62	9	0	28	1.26
1198341--1198417	19	3.7	21	76	13	68	41	15	5	37	1.70
1198341--1198398	22	2.6	22	81	7	64	41	17	5	36	1.72
1198377--1198477	19	5.5	19	82	7	136	38	11	8	40	1.73
1198412--1198464	16	3.1	16	75	15	61	39	9	9	41	1.70
1198863--1199547	132	5.2	132	95	0	1201	29	23	18	28	1.98
1201114--1201146	14	2.3	15	89	5	50	24	33	15	27	1.95
1201387--1201420	5	6.8	5	100	0	68	0	0	17	82	0.67
1202956--1202988	15	2.4	14	90	10	50	18	9	42	30	1.81
1203509--1203540	15	2.2	15	94	5	57	65	0	3	31	1.08
1206362--1206407	24	1.9	24	86	0	65	10	26	17	45	1.81
1209433--1209495	32	1.9	34	93	6	112	73	3	1	22	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1209408--1209479	24	3.2	22	81	16	85	75	1	1	22	0.96
1209969--1210045	19	3.7	21	76	13	68	41	15	5	37	1.70
1209969--1210026	22	2.6	22	81	7	64	41	17	5	36	1.72
1210005--1210185	19	9.8	19	82	7	230	38	12	8	40	1.74
1209998--1210184	54	3.4	54	78	12	222	38	12	8	40	1.73
1210005--1210178	73	2.4	73	100	0	348	39	11	8	40	1.72
1210348--1210450	30	3.5	28	80	11	109	36	8	23	31	1.85
1215709--1215785	31	2.5	31	82	4	84	33	9	11	45	1.72
1223493--1223756	27	9.9	27	82	3	304	20	18	20	40	1.91
1231983--1232022	11	3.6	11	100	0	80	37	42	0	20	1.52
1231936--1232018	22	3.8	22	87	3	105	32	37	2	27	1.70
1239240--1239280	20	2.0	20	100	0	82	36	24	4	34	1.77
1241357--1241406	18	2.8	18	84	3	75	48	0	0	52	1.00
1241357--1241423	33	1.9	35	85	8	93	52	0	0	47	1.00
1241866--1241908	5	8.4	5	97	2	77	20	0	0	79	0.74
1245617--1245641	13	1.9	13	100	0	50	48	16	0	36	1.46
1262563--1262633	34	2.1	34	97	0	133	36	2	30	29	1.72
1266140--1266384	44	5.6	44	84	2	305	37	22	15	25	1.93
1266138--1266384	88	2.8	88	87	0	359	37	21	15	25	1.93
1266144--1266384	132	1.8	132	88	3	369	36	21	15	25	1.93
1266437--1266470	14	2.4	14	100	0	68	29	23	5	41	1.78
1269543--1269631	24	3.8	23	83	8	108	31	13	24	30	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1273330--1273613	67	4.2	67	85	2	313	22	22	17	37	1.94
1278591--1278624	12	2.8	12	90	4	50	17	0	11	70	1.16
1285635--1285662	6	4.7	6	100	0	56	32	17	0	50	1.47
1288746--1288779	15	2.3	15	89	0	50	52	11	26	8	1.67
1290348--1290397	26	1.9	26	100	0	100	38	22	8	32	1.83
1291342--1291384	18	2.5	17	82	10	52	60	2	0	37	1.10
1291360--1291389	14	2.1	14	93	0	51	70	0	0	30	0.88
1293079--1293122	23	2.0	22	86	13	63	50	2	2	45	1.27
1294308--1294358	9	5.7	9	72	9	50	29	3	1	64	1.22
1306231--1306290	28	2.1	28	84	6	77	38	25	20	16	1.93
1317511--1317574	30	2.2	29	82	2	74	35	18	9	35	1.83
1319694--1319731	18	2.1	18	95	0	67	23	26	7	42	1.81
1320086--1320276	62	3.1	61	86	6	239	36	4	8	50	1.53
1323271--1323342	25	2.8	25	87	6	101	25	22	1	51	1.56
1323652--1323787	28	4.6	28	74	19	109	43	19	0	36	1.57
1323667--1323734	33	2.1	33	94	0	118	44	13	1	41	1.52
1325183--1325220	6	6.5	6	87	6	60	0	63	0	36	0.95
1331760--1332310	271	2.0	268	87	5	797	31	9	23	35	1.87
1334894--1334977	26	3.2	26	93	0	132	21	21	22	34	1.97
1339991--1340055	21	3.0	21	84	6	76	12	24	12	50	1.74
1341975--1342025	16	3.2	15	81	10	57	49	1	31	17	1.58
1345298--1345686	199	1.9	201	90	1	620	46	13	6	33	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1346928--1346963	18	2.0	18	89	10	56	50	30	2	16	1.60
1349719--1349754	19	1.9	18	88	5	54	44	0	13	41	1.44
1349719--1349754	9	3.9	9	89	7	54	44	0	13	41	1.44
1353245--1353336	42	2.2	42	94	0	157	30	25	21	22	1.99
1353389--1353440	19	2.7	19	84	3	68	28	36	0	34	1.58
1354727--1354776	25	2.0	25	88	0	73	54	26	0	20	1.45
1355430--1355502	38	1.9	38	83	5	94	27	10	17	43	1.83
1362461--1362487	6	4.5	6	100	0	54	0	48	0	51	1.00
1367971--1367995	12	2.1	12	100	0	50	60	8	0	32	1.26
1368277--1368503	24	9.8	23	73	14	166	54	3	6	35	1.45
1368344--1368533	45	4.2	45	77	11	172	56	3	5	34	1.41
1368277--1368489	114	1.9	114	82	9	274	53	3	6	35	1.45
1368277--1368545	69	3.9	70	76	10	216	55	4	5	34	1.43
1368269--1368514	114	2.1	114	78	10	268	54	4	6	35	1.44
1368519--1368572	24	2.3	24	84	9	67	59	7	1	31	1.36
1370626--1370675	19	2.7	18	82	11	57	56	4	0	40	1.18
1370637--1370694	27	2.1	27	83	0	71	53	3	0	43	1.17
1370683--1370728	18	2.6	17	83	10	56	69	2	0	28	1.00
1370633--1370719	44	2.0	45	82	11	108	54	3	0	42	1.17
1370830--1370860	16	1.9	16	93	0	53	35	6	3	54	1.42
1371040--1371079	21	1.9	21	94	0	71	55	12	12	20	1.69
1374517--1374601	29	3.0	29	80	11	97	44	10	0	44	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1374495--1374592	28	3.5	28	86	6	137	41	11	0	46	1.39
1374673--1374766	27	3.5	27	95	0	161	26	29	27	15	1.96
1374908--1374946	19	2.0	21	85	10	55	25	0	7	66	1.18
1375019--1375062	3	14.7	3	100	0	88	0	0	31	68	0.90
1375624--1375654	16	1.9	16	100	0	62	41	12	12	32	1.81
1380962--1381014	26	2.0	26	85	7	72	47	7	1	43	1.42
1380934--1381066	62	2.2	60	78	10	151	52	12	0	34	1.44
1381121--1381173	26	2.0	26	96	0	97	9	18	3	67	1.33
1381201--1381303	27	3.8	27	87	2	136	16	25	31	27	1.97
1381363--1381421	27	2.2	26	88	8	91	50	0	8	40	1.33

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