genome.fa.s194.2.7.7.80.10.50.1000.9.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: Scaffold194
Parameters: 2 7 7 80 10 50 1000
Length:  3945165

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   

This is table  9  of  24  ( 2800 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)
1469041--1469756	28	24.4	29	78	11	549	30	31	16	22	1.96
1469041--1469768	89	8.3	88	83	8	733	29	31	16	21	1.96
1469744--1469793	25	2.0	25	88	0	73	30	28	22	20	1.98
1469913--1470036	25	5.2	24	62	15	69	20	28	16	33	1.95
1469870--1470129	48	5.5	47	85	3	258	20	26	17	35	1.95
1469896--1469962	21	3.0	22	71	14	64	25	25	11	37	1.90
1469904--1470129	96	2.4	95	87	3	321	19	27	17	35	1.94
1469904--1470129	48	4.8	48	85	3	287	19	27	17	35	1.94
1470805--1471001	20	8.8	20	70	22	133	29	14	13	42	1.84
1470825--1471052	51	4.7	49	79	13	258	28	14	13	43	1.84
1470794--1471052	71	3.6	71	76	13	271	27	15	13	43	1.84
1470805--1471001	91	2.2	91	98	0	376	29	14	13	42	1.84
1470909--1471052	52	2.9	50	86	6	193	27	15	13	44	1.83
1471009--1471052	20	2.0	21	83	16	63	27	15	11	45	1.81
1471922--1471960	19	2.1	19	85	4	53	25	17	10	46	1.80
1477059--1477084	13	2.0	13	100	0	52	38	15	15	30	1.88
1479311--1479355	21	2.1	21	84	8	56	53	4	20	22	1.63
1481157--1481187	15	2.1	15	93	0	53	48	16	22	12	1.80
1483266--1483330	13	5.0	13	100	0	130	30	15	15	38	1.88
1486950--1487190	121	2.0	122	90	2	387	37	12	16	33	1.87
1491046--1491086	21	2.0	20	90	4	64	51	17	12	19	1.76
1494767--1495208	30	14.2	30	81	6	395	22	29	14	33	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1494764--1495117	95	3.8	93	86	6	459	23	29	14	32	1.94
1494767--1495108	125	2.7	127	81	7	382	23	29	14	31	1.95
1494767--1495235	62	7.5	61	79	8	401	22	30	14	32	1.94
1495089--1495956	34	26.8	33	78	11	861	18	31	13	35	1.90
1495413--1495470	27	2.1	27	90	0	89	22	27	12	37	1.89
1495089--1495953	261	3.3	259	86	6	1159	18	32	13	35	1.90
1496092--1496257	39	4.0	39	73	13	143	27	26	19	27	1.99
1495956--1496300	87	4.0	87	85	1	451	26	26	18	28	1.98
1496557--1496582	13	2.0	13	100	0	52	38	15	15	30	1.88
1496629--1496656	13	2.2	13	100	0	56	28	14	17	39	1.89
1496609--1496674	33	2.0	33	88	5	98	30	15	13	40	1.85
1501868--1501924	13	3.9	13	72	24	51	35	12	17	35	1.87
1501848--1501948	32	3.1	32	94	1	175	34	10	17	36	1.85
1501846--1501943	19	5.8	18	69	28	81	33	11	17	37	1.85
1502006--1502186	52	3.5	52	96	0	326	36	17	17	28	1.93
1508762--1508786	13	1.9	13	100	0	50	32	16	16	36	1.90
1508857--1508881	13	1.9	13	100	0	50	32	16	16	36	1.90
1508741--1509005	137	2.0	130	93	5	449	34	15	18	31	1.92
1508975--1509025	20	2.6	20	87	9	70	41	17	13	27	1.87
1510610--1510643	12	2.8	12	90	0	50	41	0	35	23	1.55
1517631--1517655	13	1.9	13	100	0	50	32	16	16	36	1.90
1517726--1517750	13	1.9	13	100	0	50	32	16	16	36	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1517610--1517874	137	2.0	130	93	5	449	34	15	18	32	1.91
1526097--1526221	16	7.9	15	75	19	103	82	12	4	0	0.85
1526110--1526215	6	17.0	6	76	16	74	83	12	4	0	0.80
1526130--1526221	15	6.3	15	76	16	95	84	14	1	0	0.67
1526095--1526209	31	3.7	29	80	17	115	83	11	4	0	0.83
1526095--1526221	50	2.6	47	80	8	130	82	12	3	0	0.84
1526129--1526206	1	78.0	1	75	0	66	87	11	1	0	0.61
1526111--1526215	24	4.2	24	82	13	115	82	12	4	0	0.81
1527666--1528078	29	13.9	29	86	4	531	27	30	16	25	1.97
1527657--1528237	88	6.4	89	79	10	520	26	31	16	25	1.96
1527666--1527978	59	5.3	59	94	1	531	28	31	17	22	1.96
1528080--1528133	27	2.0	27	89	7	83	22	31	14	31	1.94
1528141--1528481	33	10.5	33	85	7	443	28	34	17	19	1.95
1528469--1529207	92	8.0	92	92	1	1174	25	24	18	31	1.97
1528633--1528700	21	3.2	21	62	25	52	26	25	17	30	1.97
1529095--1529162	22	3.1	22	64	26	54	23	22	20	33	1.97
1529115--1529252	52	2.7	52	91	0	222	22	22	18	36	1.95
1531545--1531569	13	1.9	13	100	0	50	36	16	16	32	1.90
1531525--1531593	32	2.1	33	94	2	122	34	11	17	36	1.86
1531631--1531655	13	1.9	13	100	0	50	32	16	16	36	1.90
1531664--1531739	32	2.4	32	97	0	143	30	21	21	27	1.98
1532618--1532658	21	1.9	22	90	5	66	21	19	17	41	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1538659--1538786	52	2.5	52	98	1	249	31	17	17	33	1.93
1538795--1538819	13	1.9	13	100	0	50	36	16	16	32	1.90
1538860--1538926	33	2.0	33	88	0	98	40	13	11	34	1.81
1538882--1538906	13	1.9	13	100	0	50	32	16	16	36	1.90
1543094--1543331	122	1.9	123	82	0	298	19	16	33	30	1.94
1543941--1544006	5	12.2	5	80	13	69	18	4	0	77	0.94
1543937--1544002	22	3.0	22	100	0	132	18	4	0	77	0.94
1543937--1544002	14	4.6	14	72	20	55	18	4	0	77	0.94
1544821--1544864	23	1.9	24	86	9	65	40	22	6	29	1.80
1544975--1545021	22	2.1	22	100	0	94	57	8	12	21	1.62
1545282--1545334	20	2.7	20	87	0	70	30	20	13	35	1.91
1547663--1547692	14	2.1	15	93	6	53	50	6	10	33	1.62
1550629--1550693	16	4.1	17	84	9	75	53	1	1	43	1.19
1550611--1550685	16	4.7	16	79	14	84	53	0	1	45	1.08
1560136--1560169	17	2.0	17	88	0	50	35	8	23	32	1.86
1561674--1561746	26	2.7	26	82	4	92	24	10	20	43	1.84
1563630--1563662	8	4.1	8	100	0	66	36	12	27	24	1.91
1564468--1564595	50	2.6	50	86	2	177	41	15	17	25	1.89
1566861--1567038	79	2.3	79	82	5	209	32	14	26	26	1.95
1566990--1567065	27	2.8	28	85	2	100	19	19	35	25	1.95
1567049--1567333	51	5.6	51	84	4	344	32	10	24	31	1.89
1567045--1567329	153	1.9	154	85	2	405	32	10	25	30	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1569731--1569780	19	2.5	21	90	6	77	32	14	14	40	1.85
1572590--1572614	13	1.9	13	100	0	50	36	16	16	32	1.90
1572570--1572636	33	2.0	33	88	0	98	34	11	13	40	1.81
1572712--1572832	52	2.3	52	94	2	208	32	19	18	30	1.95
1581047--1581191	31	4.7	31	87	6	197	26	28	18	26	1.98
1581047--1581210	62	2.6	62	86	6	226	25	29	17	28	1.97
1581044--1581254	93	2.3	93	85	5	275	24	29	17	28	1.97
1581169--1581692	72	7.7	70	82	9	520	20	33	12	33	1.90
1581408--1581467	27	2.2	27	87	0	84	18	38	15	28	1.91
1581207--1581669	234	2.0	236	85	7	629	19	34	12	33	1.89
1581203--1581692	34	14.4	34	83	8	529	19	34	12	33	1.89
1581746--1582596	49	17.7	49	88	5	1260	24	27	18	29	1.98
1581746--1582596	146	5.9	146	89	4	1245	24	27	18	29	1.98
1581741--1582596	195	4.5	190	91	4	1289	24	27	18	30	1.98
1582506--1582644	52	2.6	52	82	4	161	25	25	15	33	1.95
1583471--1583495	13	1.9	13	100	0	50	36	16	16	32	1.90
1583451--1583517	33	2.0	33	88	0	98	34	11	13	40	1.81
1583593--1583713	52	2.3	52	94	2	208	33	18	18	30	1.94
1587600--1587641	16	2.6	16	88	3	57	66	9	4	19	1.38
1587598--1587649	22	2.3	22	83	3	59	65	7	3	23	1.35
1588778--1589107	79	4.2	80	83	5	395	32	14	26	26	1.95
1589167--1589239	28	2.6	29	82	12	107	26	19	31	23	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1589247--1589395	51	2.9	51	74	2	147	33	10	26	29	1.90
1591690--1591743	20	2.7	20	97	0	99	44	12	14	27	1.82
1591710--1591843	50	2.7	50	94	0	223	43	13	14	28	1.84
1592420--1592561	42	3.4	41	80	12	132	44	10	24	20	1.83
1592452--1592657	42	4.8	44	75	14	171	41	13	26	19	1.88
1592647--1592911	61	4.5	61	80	8	227	30	19	24	25	1.98
1592777--1592911	55	2.5	55	89	3	202	28	21	22	27	1.99
1592721--1593124	210	1.9	210	86	3	580	27	19	26	26	1.99
1592771--1593067	155	2.0	149	82	6	364	27	18	27	25	1.98
1592931--1593177	55	4.4	55	86	5	289	23	20	27	28	1.99

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24