genome.fa.s16.2.7.7.80.10.50.1000.10.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: Scaffold16
Parameters: 2 7 7 80 10 50 1000
Length:  5287347

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   25   26   27   28   29   30   31   32   
          33   34   35   

This is table  10  of  35  ( 4175 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)
1399744--1400027	79	3.6	77	78	6	275	28	22	13	35	1.92
1399980--1400044	25	2.5	26	80	10	69	27	24	16	30	1.97
1399999--1400051	25	2.1	25	89	0	79	24	18	20	35	1.95
1399884--1400202	176	1.8	175	87	0	476	27	23	13	34	1.93
1400061--1400291	78	2.9	79	85	3	288	29	24	12	34	1.91
1400061--1400318	79	3.3	79	85	3	324	28	23	12	35	1.92
1400367--1400428	26	2.4	26	91	0	97	30	32	14	22	1.94
1402402--1402431	4	7.5	4	92	0	51	23	3	0	73	0.98
1407217--1407346	50	2.6	50	87	0	179	29	19	11	40	1.86
1409620--1409865	79	3.1	79	79	7	227	28	25	13	32	1.94
1412107--1412164	22	2.7	22	86	5	75	27	20	8	43	1.81
1412115--1412164	22	2.4	22	90	6	77	28	20	8	44	1.79
1416011--1417082	62	17.3	61	77	7	926	24	23	19	32	1.97
1416058--1417082	308	3.3	306	80	6	1032	24	23	19	32	1.97
1416008--1417085	250	4.3	245	80	6	1061	24	23	19	32	1.97
1417092--1417232	45	3.2	44	77	4	151	19	28	9	41	1.84
1417191--1417368	77	2.4	75	78	4	189	21	27	14	35	1.93
1418471--1418587	51	2.3	51	85	8	166	32	13	25	28	1.94
1418522--1419164	79	8.1	77	76	9	496	35	12	23	28	1.91
1418528--1419164	158	4.0	157	77	7	601	35	12	23	28	1.91
1419125--1419196	28	2.6	28	86	6	94	25	15	30	29	1.96
1422402--1422880	59	8.0	58	84	6	539	26	19	28	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1422376--1422881	118	4.2	118	84	3	597	26	19	28	26	1.99
1422399--1422879	177	2.7	180	85	4	623	26	19	28	25	1.99
1423856--1423912	1	57.0	1	75	0	51	1	1	8	87	0.68
1423833--1423909	17	4.8	17	77	17	58	2	9	6	81	0.94
1423856--1423916	11	6.1	10	76	19	65	1	1	9	86	0.70
1423870--1423916	18	2.6	19	86	10	71	0	2	10	87	0.63
1423854--1423912	32	1.9	30	89	6	91	1	3	8	86	0.75
1423858--1423915	29	2.0	30	86	3	82	1	1	10	86	0.73
1434711--1435413	79	8.9	79	81	3	727	33	12	23	29	1.92
1434743--1435413	237	2.8	233	84	3	833	33	12	24	29	1.93
1438015--1438119	20	5.7	19	69	21	64	41	11	14	32	1.81
1438053--1438082	13	2.3	13	94	0	51	40	10	16	33	1.82
1438015--1438118	52	2.0	52	83	3	129	42	11	14	31	1.81
1438857--1438924	19	3.5	19	91	2	100	29	19	13	38	1.89
1441263--1441641	79	4.8	79	79	6	347	28	24	13	33	1.93
1441263--1441638	157	2.4	157	82	6	438	27	24	13	34	1.93
1441578--1441694	50	2.3	51	83	4	157	27	25	13	33	1.94
1449369--1449746	61	6.2	60	79	7	316	27	24	18	28	1.98
1449363--1449681	119	2.7	119	83	3	363	26	25	19	29	1.98
1452749--1452977	107	2.1	107	86	0	323	26	26	15	31	1.96
1452856--1453499	79	8.2	78	78	6	539	28	24	12	34	1.92
1452854--1453499	157	4.1	156	75	11	501	28	24	12	33	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1452856--1453499	236	2.7	235	78	7	662	28	24	12	34	1.92
1455450--1455493	21	2.0	22	82	4	54	36	0	4	59	1.18
1457491--1457545	19	2.8	20	77	2	58	29	16	16	38	1.90
1457575--1457599	13	1.9	13	100	0	50	36	16	16	32	1.90
1467278--1467359	42	2.0	42	90	0	128	20	10	17	51	1.75
1467522--1467554	16	2.1	16	94	0	57	24	15	6	54	1.63
1470942--1470990	9	5.4	9	85	9	73	0	0	16	83	0.64
1470941--1470999	19	3.2	19	88	11	95	0	1	15	83	0.74
1470933--1470999	27	2.5	27	81	13	84	0	4	13	82	0.82
1470940--1470998	30	2.0	30	83	12	77	0	1	15	83	0.74
1483377--1484047	79	8.5	79	80	3	656	33	12	24	29	1.93
1486649--1486719	20	3.5	20	92	0	97	43	8	15	32	1.77
1487411--1487579	50	3.7	47	74	21	144	29	15	13	41	1.85
1487460--1487527	19	3.5	19	97	2	127	30	14	11	42	1.82
1487411--1487579	88	1.9	89	84	6	227	29	15	13	41	1.85
1489876--1490122	79	3.2	78	82	6	293	28	25	12	34	1.92
1490057--1490172	50	2.3	51	85	4	146	28	25	12	33	1.93
1495637--1495662	13	2.0	13	100	0	52	38	15	15	30	1.88
1499708--1499738	15	2.1	15	93	0	53	48	16	22	12	1.80
1501963--1502009	21	2.3	21	79	20	55	34	19	4	42	1.70
1501965--1502007	20	2.2	19	84	16	52	32	18	4	44	1.71
1504384--1504409	13	2.0	13	100	0	52	38	15	15	30	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1507759--1508076	61	5.3	60	83	3	370	26	26	19	27	1.99
1507759--1508071	119	2.6	119	82	6	362	25	26	19	28	1.99
1508673--1508783	50	2.2	50	82	6	127	28	18	14	38	1.90
1511107--1511334	107	2.1	107	86	2	323	26	26	14	31	1.95
1511203--1511262	28	2.2	27	82	5	68	23	21	18	36	1.95
1511214--1511613	79	5.1	78	84	3	455	28	23	13	34	1.93
1511213--1511597	157	2.4	158	84	3	508	28	23	13	34	1.93
1511497--1511760	127	2.1	127	82	4	318	28	25	11	34	1.91
1511660--1511831	79	2.2	79	82	0	209	26	27	12	33	1.92
1513809--1513851	21	2.0	22	81	4	52	34	0	4	60	1.17
1514603--1514628	13	2.0	13	100	0	52	30	15	15	38	1.88
1517164--1517228	13	5.0	13	92	0	103	35	13	18	32	1.90
1517164--1517227	26	2.5	26	97	0	119	34	14	18	32	1.91
1517214--1517252	20	2.0	20	94	0	69	51	10	15	23	1.73
1519307--1519337	15	2.1	15	93	0	53	12	22	16	48	1.80
1523400--1523425	13	2.0	13	100	0	52	30	15	15	38	1.88
1527091--1527160	33	2.1	33	89	0	104	34	11	14	40	1.82
1527111--1527135	13	1.9	13	100	0	50	36	16	16	32	1.90
1527233--1527353	52	2.3	52	97	0	224	34	18	18	28	1.94
1534448--1534497	18	2.8	18	78	6	57	86	2	4	8	0.78
1534448--1534497	12	4.3	12	77	10	50	86	2	4	8	0.78
1535436--1535520	30	2.8	31	87	3	118	24	28	17	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1535496--1535587	27	3.2	27	70	16	76	22	33	14	29	1.93
1535474--1535756	34	8.7	32	82	12	278	19	34	13	32	1.91
1535522--1535756	33	6.9	34	88	6	300	19	34	12	33	1.89
1535758--1535969	33	6.5	32	87	6	286	28	36	17	17	1.93
1535758--1535961	98	2.1	99	89	5	324	27	36	17	18	1.93
1535758--1535961	65	3.1	65	88	7	313	27	36	17	18	1.93
1535962--1536583	49	12.7	49	85	4	812	25	26	17	30	1.97
1536023--1536097	26	3.0	26	63	21	70	25	26	22	25	2.00
1535962--1536583	98	6.4	98	91	5	938	25	26	17	30	1.97
1535962--1536583	195	3.2	196	91	3	965	25	26	17	30	1.97
1537504--1537573	33	2.1	33	89	0	104	34	11	14	40	1.82
1537524--1537548	13	1.9	13	100	0	50	36	16	16	32	1.90
1537647--1537767	52	2.3	52	95	0	215	34	17	18	29	1.94
1540883--1540937	13	4.5	11	80	13	56	1	3	10	83	0.84
1554841--1554915	20	3.8	20	78	3	71	41	10	13	34	1.79
1554838--1554915	40	2.0	39	87	2	111	41	11	12	34	1.80
1567177--1567229	20	2.5	20	90	6	79	41	9	15	33	1.79
1567279--1567356	21	3.7	21	73	19	72	32	15	14	38	1.87
1567277--1567356	42	1.9	42	89	0	124	31	15	13	40	1.86
1572131--1572185	26	2.1	26	82	0	65	41	21	5	30	1.76
1572898--1572954	29	2.0	29	86	3	80	21	28	17	33	1.96
1572858--1573124	30	8.8	30	69	11	132	22	31	13	33	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1573052--1573199	74	2.0	74	95	0	269	27	32	12	27	1.93
1573022--1573210	104	1.8	104	81	4	229	25	31	14	28	1.95
1573126--1573313	60	3.2	60	79	10	163	25	29	12	32	1.92
1573126--1573345	30	7.3	30	74	10	126	25	30	13	30	1.94
1573495--1573708	93	2.3	93	82	9	249	32	32	16	18	1.93
1573289--1573721	32	13.7	31	75	10	326	30	33	16	19	1.94
1573289--1573721	63	6.9	63	76	8	337	30	33	16	19	1.94
1573841--1573976	52	2.6	52	75	4	123	28	25	11	34	1.90
1573922--1574198	113	2.5	113	86	1	376	24	24	15	36	1.94
1575056--1575081	13	2.0	13	100	0	52	46	15	7	30	1.74

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   25   26   27   28   29   30   31   32   
          33   34   35