genome.fa.s144.2.7.7.80.10.50.1000.9.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: Scaffold144
Parameters: 2 7 7 80 10 50 1000
Length:  3311329

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  9  of  21  ( 2468 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)
1161744--1161802	19	3.2	18	88	7	82	33	18	16	30	1.94
1162109--1162324	34	6.4	34	85	5	278	40	27	7	24	1.83
1162107--1162324	67	3.2	67	88	1	319	40	27	7	24	1.82
1162971--1163005	15	2.3	15	90	5	52	45	0	8	45	1.34
1172882--1172926	23	2.0	22	82	4	54	55	2	0	42	1.12
1172897--1172943	22	2.1	22	84	7	60	57	2	0	40	1.11
1180179--1180278	36	2.7	36	80	11	89	41	0	1	58	1.05
1180170--1180266	50	1.9	51	83	10	128	41	0	0	58	0.98
1180219--1180313	19	4.9	18	75	20	93	33	0	2	64	1.06
1180219--1180308	36	2.6	35	83	13	107	33	0	2	64	1.06
1184212--1184244	12	2.6	13	95	4	59	33	9	0	57	1.30
1184331--1184388	13	4.1	14	77	14	66	50	0	0	50	1.00
1184513--1184550	20	1.9	20	84	10	51	44	2	0	52	1.14
1184500--1185089	175	3.4	171	78	7	578	40	6	6	46	1.56
1185238--1185277	21	1.9	21	85	10	55	60	2	0	37	1.11
1185574--1185606	13	2.5	13	90	9	50	45	0	0	54	0.99
1191035--1191109	39	2.0	37	82	10	91	64	2	0	33	1.08
1191060--1191092	16	2.1	16	88	11	50	66	3	0	30	1.06
1193285--1193317	2	16.5	2	100	0	66	51	0	0	48	1.00
1193898--1193931	16	2.1	16	89	10	52	64	0	2	32	1.08
1193889--1193935	18	2.6	17	77	16	51	65	0	2	31	1.04
1195292--1195337	2	23.0	2	100	0	92	0	50	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1198448--1198492	2	22.5	2	95	0	81	48	2	0	48	1.13
1199142--1199178	18	2.0	18	89	5	56	21	0	2	75	0.92
1199764--1199808	3	15.0	3	100	0	90	66	0	0	33	0.92
1201169--1201211	21	2.1	20	87	12	61	48	6	0	44	1.29
1201788--1201832	22	2.0	23	87	12	67	31	0	0	68	0.89
1201794--1201839	22	2.0	22	84	12	58	34	0	0	65	0.93
1201845--1201883	20	2.0	20	85	10	53	46	10	0	43	1.37
1202743--1202787	2	22.5	2	100	0	90	0	48	0	51	1.00
1204763--1204818	25	2.3	24	87	3	76	69	1	3	25	1.14
1205414--1205466	4	12.8	4	88	7	79	20	5	0	73	1.03
1205412--1205462	26	2.0	26	100	0	102	19	9	0	70	1.14
1205414--1205474	30	2.0	30	90	0	95	22	4	1	70	1.15
1206203--1206241	19	2.1	19	85	9	53	38	0	2	58	1.12
1206778--1206827	25	2.0	25	100	0	100	8	16	36	40	1.77
1210120--1210162	21	2.0	22	90	4	70	39	9	6	44	1.64
1210141--1210492	159	2.2	162	83	5	419	39	13	11	36	1.80
1211427--1211479	20	2.7	20	76	8	54	5	20	0	73	1.03
1212126--1212552	166	2.6	165	88	3	632	54	7	8	29	1.57
1214210--1215180	508	1.9	508	88	0	1478	25	18	30	25	1.98
1215854--1216034	52	3.5	51	77	3	173	24	14	34	26	1.94
1224227--1224263	18	2.1	18	100	0	74	21	0	40	37	1.54
1231026--1231084	29	2.0	29	100	0	118	18	23	6	50	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1237160--1237192	14	2.3	15	89	5	50	72	6	0	21	1.05
1240418--1240510	42	2.3	40	81	9	100	52	1	1	45	1.15
1241359--1241398	20	2.0	20	90	0	62	45	0	0	55	0.99
1241370--1241410	16	2.6	16	85	11	57	43	0	0	56	0.99
1241383--1241411	14	2.0	15	93	6	51	44	0	0	55	0.99
1242942--1242982	21	2.0	20	86	9	57	41	0	2	56	1.13
1243055--1243096	20	2.2	20	91	4	68	64	4	2	28	1.26
1243799--1243853	24	2.2	25	78	9	60	47	0	0	52	1.00
1243867--1243941	15	4.5	15	70	20	51	38	1	0	60	1.06
1243855--1243923	24	2.9	24	75	12	63	34	1	0	63	1.03
1244104--1244152	18	2.9	18	75	22	52	53	0	2	44	1.12
1245196--1245274	24	3.2	25	80	10	74	46	2	1	49	1.23
1245231--1245287	24	2.4	24	81	0	69	42	5	0	52	1.24
1245689--1245734	20	2.4	19	82	10	58	67	0	8	23	1.18
1247163--1247210	25	1.9	25	87	8	71	27	2	0	70	0.98
1252969--1252994	2	13.0	2	100	0	52	0	50	0	50	1.00
1257105--1257143	20	2.0	20	89	0	60	25	2	0	71	0.98
1261852--1261913	21	3.2	21	68	25	55	46	0	1	51	1.10
1263312--1263357	24	1.9	24	82	8	58	45	17	10	26	1.81
1263505--1263568	22	2.9	22	84	11	78	35	3	0	60	1.12
1263510--1263587	25	3.0	25	82	17	90	37	2	0	60	1.11
1263675--1263736	21	2.7	24	75	12	76	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1264499--1264640	74	1.9	73	84	1	185	36	10	2	50	1.52
1264784--1264833	2	25.0	2	100	0	100	50	0	0	50	1.00
1265385--1265426	14	2.8	16	75	14	52	30	0	0	69	0.89
1272309--1272334	2	13.0	2	100	0	52	50	0	0	50	1.00
1273634--1273667	7	4.9	7	100	0	68	14	0	0	85	0.60
1273993--1274020	2	14.0	2	100	0	56	50	0	0	50	1.00
1277995--1278036	14	3.0	13	81	18	57	40	0	0	59	0.97
1277995--1278048	14	3.8	14	79	11	56	40	1	0	57	1.09
1278240--1278274	8	4.4	8	96	0	61	91	0	8	0	0.42
1278410--1278444	2	17.5	2	100	0	70	0	48	0	51	1.00
1283526--1283633	54	2.0	54	100	0	216	20	22	14	42	1.88
1284843--1284875	17	2.0	17	88	5	50	42	0	6	51	1.26
1284811--1284958	72	1.9	76	86	10	214	43	1	5	50	1.33
1286888--1286986	16	6.3	16	69	11	71	51	2	1	45	1.19
1287061--1287131	22	3.3	21	69	21	58	46	1	0	52	1.09
1288548--1288572	13	1.9	13	100	0	50	56	0	0	44	0.99
1290169--1290232	24	2.7	23	83	13	76	37	1	0	60	1.06
1290234--1290280	20	2.3	20	89	7	69	53	2	2	42	1.25
1290401--1290455	7	8.1	7	74	8	51	50	0	0	49	1.00
1290780--1290874	48	2.0	48	83	8	122	40	1	0	58	1.05
1295824--1295874	20	2.5	20	83	3	66	41	11	15	31	1.83
1300913--1300957	22	2.0	23	86	4	65	46	8	11	33	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1301527--1301617	14	6.1	14	69	18	51	41	3	0	54	1.16
1301576--1301641	19	3.6	18	73	8	62	33	1	0	65	1.02
1301560--1301644	31	2.8	31	83	15	106	34	3	0	62	1.12
1301575--1301639	16	3.9	17	74	20	57	32	1	0	66	1.01
1304876--1304939	34	1.9	34	87	6	96	20	9	12	57	1.62
1304873--1304950	34	2.3	33	77	4	84	16	8	10	64	1.49
1305143--1305169	3	9.0	3	100	0	54	33	0	0	66	0.92
1306562--1306648	42	2.1	42	91	0	138	28	18	21	31	1.97
1307310--1307346	2	18.5	2	100	0	74	51	0	0	48	1.00
1308713--1308795	25	3.2	27	72	17	68	40	0	2	56	1.12
1308691--1308771	27	3.1	26	72	13	76	43	0	1	55	1.07
1308721--1308776	19	3.2	18	80	12	55	41	0	0	58	0.98
1309341--1309396	27	2.0	28	82	3	69	44	7	3	44	1.48
1312640--1312746	35	2.8	36	73	16	92	36	0	2	60	1.11
1312826--1312873	16	2.8	17	81	9	62	58	0	0	41	0.98
1313387--1313455	33	2.1	33	83	8	86	44	4	0	50	1.21
1313683--1313730	21	2.4	20	82	6	62	39	0	2	58	1.10
1313865--1313964	19	5.9	17	75	14	57	43	2	0	55	1.11
1313857--1313893	19	1.9	19	89	10	58	43	0	0	56	0.99
1313855--1313932	32	2.6	30	79	6	86	46	1	0	52	1.08
1313919--1313994	2	39.5	2	75	12	61	40	1	0	57	1.07
1318856--1318891	16	2.2	16	90	0	54	0	13	0	86	0.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1324621--1324782	84	1.9	84	89	0	252	45	6	6	42	1.54
1326387--1326428	12	3.6	12	84	12	52	23	0	2	73	0.94
1326362--1326677	160	2.0	160	82	6	390	32	7	9	50	1.64
1326863--1326900	2	19.5	2	94	5	69	50	0	0	50	1.00
1329193--1329252	24	2.5	24	75	24	65	30	3	6	60	1.39
1330064--1330088	4	6.2	4	100	0	50	0	0	24	76	0.80
1330221--1330263	18	2.4	18	80	7	52	0	58	4	37	1.19
1349945--1349991	9	4.8	10	80	15	53	23	12	0	63	1.28
1353388--1353474	32	2.6	34	80	9	97	56	2	0	41	1.12
1357153--1357197	17	2.6	17	82	0	54	26	0	0	73	0.84

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